Diff of the two buildlogs: -- --- b1/build.log 2025-03-12 00:15:42.697819934 +0000 +++ b2/build.log 2025-03-12 04:51:21.427197477 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Apr 13 16:12:58 -12 2026 -I: pbuilder-time-stamp: 1776139978 +I: Current time: Wed Mar 12 14:15:52 +14 2025 +I: pbuilder-time-stamp: 1741738552 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -35,52 +35,84 @@ 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/1888586/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3748625/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-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 Mar 12 00:16 /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/3748625/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3748625/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=42 ' - DISTRIBUTION='trixie' - 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=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='31e18d451e4f496fb1dfbcef988ca1c3' - 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='1888586' - PS1='# ' - PS2='> ' + INVOCATION_ID=085bf0cd41b34767af10082290d656fb + 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=3748625 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.nxYBFdoh/pbuilderrc_Pjnm --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nxYBFdoh/b1 --logfile b1/build.log seqan2_2.4.0+dfsg-16.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.nxYBFdoh/pbuilderrc_rSeo --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.nxYBFdoh/b2 --logfile b2/build.log seqan2_2.4.0+dfsg-16.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1888586/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3748625/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: 85 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-4.1 [10.6 MB] Get: 86 http://deb.debian.org/debian trixie/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 87 http://deb.debian.org/debian trixie/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] -Fetched 61.8 MB in 30s (2063 kB/s) +Fetched 61.8 MB in 1s (81.0 MB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19800 files and directories currently installed.) @@ -518,8 +550,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Apr 14 04:18:04 UTC 2026. -Universal Time is now: Tue Apr 14 04:18:04 UTC 2026. +Local time is now: Wed Mar 12 00:17:36 UTC 2025. +Universal Time is now: Wed Mar 12 00:17:36 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -594,7 +626,11 @@ 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/3748625/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3748625/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 @@ -724,7 +760,7 @@ -- Performing Test SSE4_SOURCE_RUNS -- Performing Test SSE4_SOURCE_RUNS - Success (Compiled & Host CPU support) -- Performing Test AVX2_SOURCE_RUNS --- Performing Test AVX2_SOURCE_RUNS - Success (Compiled & Host CPU support) +-- Performing Test AVX2_SOURCE_RUNS - Success (Compiled) -- Performing Test AVX512_KNL_SOURCE_RUNS -- Performing Test AVX512_KNL_SOURCE_RUNS - Failed -- => Abort simd detection of newer instruction sets @@ -4658,7 +4694,7 @@ apps/yara/CMakeLists.txt:188 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (28.4s) +-- Configuring done (40.5s) -- Generating done (3.6s) CMake Warning: Manually-specified variables were not used by the project: @@ -4701,7 +4737,7 @@ -- Selected repository dir: /build/reproducible-path/seqan2-2.4.0+dfsg -- Repository date not determined. -- Repository revision not determined. --- Configuring done (2.1s) +-- Configuring done (0.8s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -4731,17 +4767,23 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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]: 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 CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.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' 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' -[ 0%] Built target seqan_library [ 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 -[ 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 +[ 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=" +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 In file included from /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, @@ -4830,10 +4872,40 @@ /usr/include/c++/14/bits/stl_function.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/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: + 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 | ^~~~~~~~~~~~~~ @@ -4846,7 +4918,7 @@ 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/align.h:55: + 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 | ^~~~~~~~~~~~~~ @@ -4917,210 +4989,6 @@ /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/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/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/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/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/external_split_merge.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] @@ -5129,128 +4997,14 @@ /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/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 - | ^~~~~~~~~~~~~~ +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 | ^~~~~~~~~~~~~~ @@ -5293,44 +5047,38 @@ /usr/include/c++/14/bits/stl_function.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 { - | ^~~~~~~~~~~~~~ +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/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 { - | ^~~~~~~~~~~~~~ +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: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< +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: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/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 | ^~~~~~~~~~~~~~~ @@ -5413,8 +5161,7 @@ 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: + 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 | ^~~~~~~~~~~~~~ @@ -5467,32 +5214,6 @@ /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_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 > >]' @@ -5591,6 +5312,159 @@ /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_ = 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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ 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, @@ -5842,20 +5716,50 @@ /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 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' -[ 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%] 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 +/build/reproducible-path/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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/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 | ^~~~~~~~~~~~~~ @@ -5868,7 +5772,7 @@ 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 | ^~~~~~~~~~~~~~ @@ -5978,104 +5882,303 @@ /usr/include/c++/14/bits/stl_function.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_options.h:51, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.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/arg_parse.h:44: +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/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::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/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::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/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/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/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::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 | ^~~~~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~~ +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/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::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 | ^~~~~~~~~~~~~~ -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 - | ^~~~~~~~~~~~~~~ +/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/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/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/pair_align/lib/pair_align_lib.h:44: + 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 | ^~~~~~~~~~~~~~ @@ -6128,14 +6231,32 @@ /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/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_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 > >]' @@ -6187,25 +6308,6 @@ /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 - | ^~~~~~~~~~~~~~ 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]' @@ -6232,6 +6334,146 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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 +In file included from /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_options.h:51, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.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/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/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_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 @@ -6291,83 +6533,6 @@ /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::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 > >]' @@ -6394,44 +6559,6 @@ /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_ = 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())) @@ -6483,82 +6610,6 @@ /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_ = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ [ 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, @@ -7107,23 +7158,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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 +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 In file included from /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, @@ -7212,6 +7258,93 @@ /usr/include/c++/14/bits/stl_function.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_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/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, @@ -7229,6 +7362,45 @@ /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/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/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> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.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 @@ -7296,6 +7468,14 @@ /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/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/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, @@ -7356,6 +7536,45 @@ /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: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 @@ -7382,6 +7601,13 @@ /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/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 > @@ -7583,6 +7809,57 @@ /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/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/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 @@ -7590,6 +7867,109 @@ /usr/include/c++/14/bits/stl_function.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) + | ^~~~~~~~ +/build/reproducible-path/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ 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_]': @@ -7617,6 +7997,82 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/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())) @@ -7642,6 +8098,44 @@ /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_ = 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/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]' @@ -7788,6 +8282,21 @@ /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/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/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] @@ -8348,6 +8857,16 @@ /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_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/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: @@ -8541,8 +9060,454 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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_1111 +In file included from /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, @@ -9165,310 +10130,8 @@ /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) | ^~~~~~~~ -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' -[ 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_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 - | ^~~~~~~~~~~~~~~ [ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.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_sanger.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_sanger.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/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_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/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, @@ -9550,46 +10213,6 @@ /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_ = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ 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 @@ -9597,120 +10220,6 @@ /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_ = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/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/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, @@ -10245,6 +10754,21 @@ | ^~~~~~~~ [ 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; + | ^~~~~~ In file included from /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, @@ -10360,21 +10884,6 @@ /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 @@ -10843,16 +11352,6 @@ /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 [ 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 @@ -10871,186 +11370,6 @@ 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/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/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 @@ -11174,83 +11493,6 @@ /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) - | ^~~~~~~~ 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] @@ -11305,121 +11547,6 @@ /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_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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ 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 > >]' @@ -11471,44 +11598,6 @@ /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_ = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ 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]' @@ -11535,44 +11624,6 @@ /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_ = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/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())) @@ -11764,38 +11815,8 @@ /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/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 +[ 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=" @@ -11938,11 +11959,6 @@ /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' -[ 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=" 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: @@ -11982,11 +11998,6 @@ /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/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/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< @@ -12186,6 +12197,122 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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: +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, @@ -12284,44 +12411,6 @@ /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_ = 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/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] @@ -12350,44 +12439,6 @@ /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/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/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] @@ -12710,36 +12761,6 @@ /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_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 @@ -12750,16 +12771,6 @@ 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[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_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.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_0100.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=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_0100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0100.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, @@ -12940,104 +12951,6 @@ /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/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/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 > >]' @@ -13064,21 +12977,6 @@ /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: -/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())) @@ -13104,19 +13002,6 @@ /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/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: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]' @@ -13143,14 +13028,6 @@ /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/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_ = 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())) @@ -13188,45 +13065,6 @@ /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_ = 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())) @@ -13267,13 +13105,6 @@ /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_ = 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)); @@ -13350,6 +13181,264 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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: +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_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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[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_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.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_0100.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=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_0100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0100.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 > >]' @@ -13401,44 +13490,6 @@ /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_ = 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/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]' @@ -13656,36 +13707,6 @@ /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_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 @@ -13696,16 +13717,6 @@ 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 -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 In file included from /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, @@ -13832,124 +13843,11 @@ /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/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/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/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> - | ^~~~~~~~~~~~~~ +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 | ^~~~~~~~~~~~~~ @@ -13999,19 +13897,6 @@ /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/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 > >]' @@ -14063,14 +13948,6 @@ /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/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/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]' @@ -14097,52 +13974,6 @@ /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, - 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_ = 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())) @@ -14180,32 +14011,6 @@ /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: -/build/reproducible-path/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_ = 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())) @@ -14246,57 +14051,6 @@ /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) - | ^~~~~~~~ /build/reproducible-path/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)); @@ -14373,10 +14127,11 @@ /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_ = 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: 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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -14386,16 +14141,16 @@ /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 @@ -14410,11 +14165,307 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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 > > > > > >]' +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_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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 +In file included from /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())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/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]' + 722 | if (!guessFormatFromFilename(basename, 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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -14424,16 +14475,16 @@ /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 @@ -14602,36 +14653,6 @@ /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' [ 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 @@ -14642,16 +14663,6 @@ 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 -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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_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_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, @@ -14858,93 +14869,6 @@ /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/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 - | ^~~~~~~~~~~~~~~ /build/reproducible-path/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())) @@ -14970,17 +14894,6 @@ /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/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]' @@ -15007,34 +14920,6 @@ /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/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())) @@ -15112,14 +14997,6 @@ /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/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)); @@ -15158,52 +15035,6 @@ /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 - | ^~~~~~~~~~~~~~~ -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)); @@ -15242,32 +15073,6 @@ /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: -/build/reproducible-path/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)); @@ -15306,6 +15111,252 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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_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_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_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_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, + 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())) @@ -15548,38 +15599,8 @@ /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/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_1000 +[ 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_1001.dir/DependInfo.cmake "--color=" @@ -15714,16 +15735,6 @@ /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' -[ 2%] Built target pair_align_global_0111 -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_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_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_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/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] @@ -15855,104 +15866,6 @@ /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/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_ = 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())) @@ -15990,21 +15903,6 @@ /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: -/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())) @@ -16045,19 +15943,6 @@ /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/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_ = 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)); @@ -16134,6 +16019,210 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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: +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_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_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_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_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, + 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] @@ -16181,44 +16270,6 @@ /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/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< @@ -16494,36 +16545,6 @@ /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' [ 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 @@ -16534,16 +16555,6 @@ 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_1010 -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=" -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_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.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_1100.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=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_1100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1100.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, @@ -16724,132 +16735,6 @@ /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/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 > >]' @@ -16927,60 +16812,6 @@ /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/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 - | ^~~~~~~~~~~~~~~ /build/reproducible-path/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())) @@ -17096,6 +16927,302 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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: +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_1010 +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=" +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_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.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_1100.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=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_1100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1100.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 > >]' @@ -17173,82 +17300,6 @@ /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_ = 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())) @@ -17440,36 +17491,6 @@ /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' [ 2%] Built target pair_align_global_1011 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 @@ -17480,16 +17501,6 @@ 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_1101.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=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_1101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1101.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_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, @@ -17616,104 +17627,6 @@ /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/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/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] @@ -17722,34 +17635,6 @@ /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: -/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: @@ -17796,14 +17681,6 @@ /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/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/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 > >]' @@ -17855,45 +17732,6 @@ /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 - | ^~~~~~~~~~~~~~~ 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]' @@ -17920,64 +17758,6 @@ /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: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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/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())) @@ -18015,32 +17795,6 @@ /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 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_ = 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())) @@ -18157,10 +17911,11 @@ /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_ = 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: 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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -18170,16 +17925,16 @@ /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 @@ -18194,13 +17949,307 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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 > > > > > >]' +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_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/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/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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -18234,11 +18283,13 @@ /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_ = 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 > > > > > >]' +/build/reproducible-path/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/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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -18248,16 +18299,16 @@ /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 @@ -18386,36 +18437,6 @@ /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' [ 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 @@ -18426,16 +18447,6 @@ 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/param_chooser.dir/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/param_chooser.dir/param_chooser.cpp.o -MF CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d -o CMakeFiles/param_chooser.dir/param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp -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/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/param_chooser.cpp:37: @@ -18567,82 +18578,6 @@ /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/apps/param_chooser/test_param_chooser.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/sstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:42: -/usr/include/c++/14/bits/stl_function.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/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: @@ -18682,13 +18617,6 @@ /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/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< @@ -18696,22 +18624,6 @@ /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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:33, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.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/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/param_chooser/../splazers/razers.h:30, @@ -19006,25 +18918,6 @@ /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 - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../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 > | ^~~~~~~~~~~~~~~ @@ -19055,325 +18948,6 @@ /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: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/param_chooser/../splazers/razers.h:30, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:34: -/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/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:32: /build/reproducible-path/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_]': @@ -19401,33 +18975,6 @@ /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: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/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())) @@ -19549,13 +19096,6 @@ /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: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/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)); @@ -19635,36 +19175,6 @@ /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/apps/param_chooser/../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/param_chooser/../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/param_chooser/../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/param_chooser/../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/param_chooser/../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/include/seqan/index.h:222: /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<> >, 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 = String, Alloc<> >; TIndex = Index, Alloc<> >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]' @@ -20263,6 +19773,560 @@ /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: +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: +/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::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: +/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/param_chooser/test_param_chooser.cpp:42: +/usr/include/c++/14/bits/stl_function.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/param_chooser/../splazers/paramChooser.h:33, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.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, + 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/param_chooser/../splazers/razers.h:30, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:34: +/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 + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../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/param_chooser/../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/param_chooser/../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/param_chooser/../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/param_chooser/../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/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:32: /build/reproducible-path/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_]': @@ -20480,22 +20544,8 @@ /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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 +[ 2%] Built target pair_align_global_1110 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=" @@ -20504,6 +20554,19 @@ 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/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/bam_io.h:47, @@ -20625,111 +20688,6 @@ /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/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::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/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, @@ -20840,6 +20798,33 @@ /usr/include/c++/14/bits/stl_function.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/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 @@ -20853,6 +20838,57 @@ /usr/include/c++/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +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/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp:39: @@ -20913,27 +20949,6 @@ /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/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>]': @@ -21212,6 +21227,48 @@ /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, @@ -21463,61 +21520,291 @@ /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 >]': +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: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 +/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; | ^~~~~~ -/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 >]': +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: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 +/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; | ^~~~~~ -[ 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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target rabema_prepare_sam -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.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_evaluate.dir/rabema_evaluate.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_evaluate.dir/rabema_evaluate.cpp.o -MF CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_evaluate.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/rabema/rabema_evaluate.cpp:28: -/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 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; + | ^~~~~~ +[ 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 +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; + | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target rabema_prepare_sam +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.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_evaluate.dir/rabema_evaluate.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_evaluate.dir/rabema_evaluate.cpp.o -MF CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_evaluate.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/rabema/rabema_evaluate.cpp:28: +/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 | ^~~~~~~~~~~~~~ @@ -21676,6 +21963,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 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 > >]' @@ -21702,6 +21991,17 @@ /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/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/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 = unsigned int; TCargo = unsigned int]': /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 = unsigned int; TCargo = unsigned int; TValue2 = unsigned int]' @@ -21930,270 +22230,6 @@ /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: @@ -22287,27 +22323,6 @@ /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/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] @@ -22668,6 +22683,27 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Building CXX object apps/razers/CMakeFiles/razers.dir/razers.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/razers.cpp.o -MF CMakeFiles/razers.dir/razers.cpp.o.d -o CMakeFiles/razers.dir/razers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/razers.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/stream.h:62, @@ -23175,233 +23211,6 @@ /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 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 > >]' @@ -23500,30 +23309,6 @@ /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 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/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]' @@ -24879,13 +24664,262 @@ /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=" @@ -24984,6 +25018,17 @@ /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 = 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, @@ -26006,17 +26051,6 @@ /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 = 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/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]' @@ -33045,13 +33079,13 @@ /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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target razers -[ 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_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_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/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=" @@ -34219,6 +34253,8 @@ /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_quality2prob.dir/link.d CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -o ../../bin/razers3_quality2prob -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target razers3_quality2prob +[ 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/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" @@ -34227,46 +34263,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Building CXX object apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.11\" -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/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o -MF CMakeFiles/rep_sep.dir/rep_sep.cpp.o.d -o CMakeFiles/rep_sep.dir/rep_sep.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rep_sep/rep_sep.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 '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/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, @@ -34547,6 +34543,46 @@ 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); @@ -36751,8 +36787,6 @@ /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) : | ^~~~~ -[ 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 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 > >, Owner > >, 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, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]' @@ -37258,10 +37292,6 @@ /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) : | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 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/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>]' @@ -37297,13 +37327,6 @@ /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) | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = 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 = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -37338,155 +37361,6 @@ /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) | ^~~~~~~~ -In file included from /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 - | ^~~~~~~~~~~~~~ /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_); @@ -37530,249 +37404,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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 - | ^~~~~~~~~~~~~~~ /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_)), @@ -37814,13 +37445,6 @@ /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/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 '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 >, 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 >, 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>]' 633 | else handler2->end(); @@ -38969,23 +38593,6 @@ /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) | ^~~~~~ -/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/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 >, 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 >, 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>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -39080,54 +38687,6 @@ /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/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/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 >, 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 >, 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>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -39222,134 +38781,6 @@ /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/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]': -/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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, 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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 279 | prepare(joiner, db); - | ~~~~~~~^~~~~~~~~~~~ -/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:888:32: 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] - 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::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: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:370:37: required from here - 370 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), 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:374:41: required from here - 374 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), 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]': -/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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, 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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 279 | prepare(joiner, db); - | ~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:374:41: required from here - 374 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: 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] - 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::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/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>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, 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 >, 2, int>, unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -39972,6 +39403,717 @@ /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/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); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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 >, unsigned int>, 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>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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, Alloc > >, Owner > >; 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, Alloc > >, Owner > >; TIndexSpec = Tag]' + 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::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:605:23: required from 'void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]' + 605 | TTextIterator textIt(dbFinder.dbIndex.index); + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:330:12: required from 'int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag; seqan::Nothing = seqan::Tag]' + 330 | execute(searcher); + | ~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:516:39: required from here + 516 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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 = 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 = 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 = 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 >, 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); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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 >, unsigned int>, 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>, unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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, Alloc > >, Owner > >; 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, Alloc > >, Owner > >; TIndexSpec = Tag]' + 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::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:605:23: required from 'void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]' + 605 | TTextIterator textIt(dbFinder.dbIndex.index); + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:330:12: required from 'int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag; seqan::Nothing = seqan::Tag]' + 330 | execute(searcher); + | ~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:516:39: required from here + 516 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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 = 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 = 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 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +[ 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 + | ^~~~~~~~~~~~~~ +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]': +/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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, 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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 279 | prepare(joiner, db); + | ~~~~~~~^~~~~~~~~~~~ +/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:888:32: 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] + 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::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: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:370:37: required from here + 370 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), 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:374:41: required from here + 374 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), 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]': +/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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, 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::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 279 | prepare(joiner, db); + | ~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:374:41: required from here + 374 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: 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] + 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::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) : + | ^~~~~ 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 > >, Owner > >, 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, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]' @@ -40061,59 +40203,6 @@ /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/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); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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 >, unsigned int>, 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>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, 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, Alloc > >, Owner > >; 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, Alloc > >, Owner > >; TIndexSpec = Tag]' - 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::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:605:23: required from 'void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]' - 605 | TTextIterator textIt(dbFinder.dbIndex.index); - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:330:12: required from 'int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag; seqan::Nothing = seqan::Tag]' - 330 | execute(searcher); - | ~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:516:39: required from here - 516 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 = 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 = 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 = 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_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, 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, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -40164,59 +40253,6 @@ /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 = seqan::SimpleType]' 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 >, 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); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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 >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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 >, unsigned int>, 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>, unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, 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, Alloc > >, Owner > >; 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, Alloc > >, Owner > >; TIndexSpec = Tag]' - 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::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:605:23: required from 'void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]' - 605 | TTextIterator textIt(dbFinder.dbIndex.index); - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:330:12: required from 'int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag; seqan::Nothing = seqan::Tag]' - 330 | execute(searcher); - | ~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/search.cpp:516:39: required from here - 516 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 = 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 = 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 = 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_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, Owner > >, 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 > >, Owner > >, IndexSa > >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -43193,8 +43229,6 @@ /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_ = 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)); @@ -43259,6 +43293,8 @@ /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 @@ -44210,6 +44246,17 @@ /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/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; + | ^~~~~~ /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; @@ -45477,6 +45524,18 @@ /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 function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_io.h:209:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]': +/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/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_); @@ -45586,23 +45645,14 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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 function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_io.h:209:58: + 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 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]': +/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) : | ^~~~~~~~~~~~~~ @@ -45630,20 +45680,6 @@ /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 = 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 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, @@ -46115,18 +46151,18 @@ /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 +[ 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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 4%] Built target sgip +[ 3%] Built target seqan_tcoffee 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' -[ 4%] Building CXX object apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o +[ 3%] 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, @@ -46232,8 +46268,6 @@ /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 @@ -46247,12 +46281,6 @@ /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/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=" 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: @@ -46262,11 +46290,6 @@ /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 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/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 @@ -46627,6 +46650,390 @@ /usr/include/c++/14/bits/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/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: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/pair_base.h: In instantiation of 'seqan::Pair::Pair(const T1&, const T2&) [with T1 = unsigned int; T2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:5148:46: required from 'void seqan::dumpShortIndelPolymorphismsBatch(TFragmentStore&, TReadCigars&, TGenome&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TGenome = String, Alloc<> >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' + 5148 | Pair(1,rInf))); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:971:74: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' + 971 | if(!options.realign) dumpShortIndelPolymorphismsBatch(fragmentStore, readCigars, fragmentStore.contigStore[0].seq, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, indelFileStream, options); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/basic/pair_base.h:120:53: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 120 | Pair(T1 const & _i1, T2 const & _i2) : i1(_i1), i2(_i2) {} + | ^~~~~~~ +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) + | ^~~~~~~~ +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: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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/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<> > > > >]' + 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<> >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, 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/apps/snp_store/snp_store.h:4057:36: required from 'void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' + 4057 | TContigGapIter refIt = iter(referenceGaps,candidateViewPos-refStart); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:2477:41: required from 'void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' + 2477 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2478 | readCounts,genomeID, + | ~~~~~~~~~~~~~~~~~~~~ + 2479 | groupStartCoord,groupStartPos,groupEndPos, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2480 | fileSNPs,fileIndels,options); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:986:53: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' + 986 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/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/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]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = const Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:689:35: required from 'typename seqan::Iterator >::Type seqan::iter(const T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' + 689 | return begin(me, Tag()) + pos; + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:669:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(const T&, TPos) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' + 669 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:451:22: required from 'bool seqan::isGap(const Gaps >&, TPosition) [with TSequence = String, Alloc<> >; TGapAnchors = String, Alloc<> >; TPosition = long int]' + 451 | return isGap(iter(gaps, clippedViewPos)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:4418:72: required from 'void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' + 4418 | ((indelConsens[candidateViewPos].i1 & 7) == 6 && isGap(referenceGaps, candidateViewPos-refStart))) // position in consensus is the same as in reference + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:2477:41: required from 'void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' + 2477 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2478 | readCounts,genomeID, + | ~~~~~~~~~~~~~~~~~~~~ + 2479 | groupStartCoord,groupStartPos,groupEndPos, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2480 | fileSNPs,fileIndels,options); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:986:53: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' + 986 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/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_ = const 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_ = const 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/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/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/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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 +/build/reproducible-path/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/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, @@ -46722,55 +47129,6 @@ /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, @@ -47144,78 +47502,6 @@ /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_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: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/pair_base.h: In instantiation of 'seqan::Pair::Pair(const T1&, const T2&) [with T1 = unsigned int; T2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:5148:46: required from 'void seqan::dumpShortIndelPolymorphismsBatch(TFragmentStore&, TReadCigars&, TGenome&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TGenome = String, Alloc<> >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' - 5148 | Pair(1,rInf))); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:971:74: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' - 971 | if(!options.realign) dumpShortIndelPolymorphismsBatch(fragmentStore, readCigars, fragmentStore.contigStore[0].seq, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, indelFileStream, options); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/basic/pair_base.h:120:53: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 120 | Pair(T1 const & _i1, T2 const & _i2) : i1(_i1), i2(_i2) {} - | ^~~~~~~ -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) - | ^~~~~~~~ -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: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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 @@ -47223,60 +47509,6 @@ /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) - | ^~~~~~~~ -/build/reproducible-path/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/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/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 > | ^~~~~~~~~~~~~~~ @@ -47314,173 +47546,6 @@ /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 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; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/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<> >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, 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/apps/snp_store/snp_store.h:4057:36: required from 'void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' - 4057 | TContigGapIter refIt = iter(referenceGaps,candidateViewPos-refStart); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:2477:41: required from 'void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' - 2477 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2478 | readCounts,genomeID, - | ~~~~~~~~~~~~~~~~~~~~ - 2479 | groupStartCoord,groupStartPos,groupEndPos, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2480 | fileSNPs,fileIndels,options); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:986:53: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' - 986 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/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/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]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = const Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:689:35: required from 'typename seqan::Iterator >::Type seqan::iter(const T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' - 689 | return begin(me, Tag()) + pos; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:669:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(const T&, TPos) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' - 669 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:451:22: required from 'bool seqan::isGap(const Gaps >&, TPosition) [with TSequence = String, Alloc<> >; TGapAnchors = String, Alloc<> >; TPosition = long int]' - 451 | return isGap(iter(gaps, clippedViewPos)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:4418:72: required from 'void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' - 4418 | ((indelConsens[candidateViewPos].i1 & 7) == 6 && isGap(referenceGaps, candidateViewPos-refStart))) // position in consensus is the same as in reference - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:2477:41: required from 'void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]' - 2477 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2478 | readCounts,genomeID, - | ~~~~~~~~~~~~~~~~~~~~ - 2479 | groupStartCoord,groupStartPos,groupEndPos, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2480 | fileSNPs,fileIndels,options); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:986:53: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' - 986 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/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_ = const 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_ = const 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/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/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/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/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 > @@ -47488,35 +47553,6 @@ /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/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 > >]' @@ -76619,93 +76655,6 @@ /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::Align, seqan::Alloc<> >, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::Tag >]': -/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' - 511 | valueConstruct(target_begin, std::move(*source_begin)); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' - 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' - 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' - 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' - 1301 | return resize(me.strings, new_size, tag); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' - 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' - 166 | resize(alignments, length(std::get<0>(sets))); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' - 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:91:36: required from 'void SimdAlignTestCommon__Dynamic_Score_Matrix_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' - 91 | testAlignSimd(::impl::test_align_simd::GlobalAlignTester_(), dynScore, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | TAlignConf(), TLengthParam(), TBandSwitch()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:80:1: required from here - 80 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix_Align) -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' 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/align.h:97: -/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) - | ^~~~~~~~ -/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 >]': -/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' - 511 | valueConstruct(target_begin, std::move(*source_begin)); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' - 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' - 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' - 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' - 1301 | return resize(me.strings, new_size, tag); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' - 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' - 166 | resize(alignments, length(std::get<0>(sets))); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' - 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:74:30: required from 'void SimdAlignTestCommon__Affine_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' - 74 | testAlignSimd(impl::test_align_simd::GlobalAlignTester_(), seqan::Score(2, -1, -1, -3), - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 75 | TAlignConf(), TLengthParam(), TBandSwitch()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:68:1: required from here - 68 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Align) -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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) - | ^~~~~~~~ [ 5%] Linking CXX executable ../../bin/yara_mapper cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara && /usr/bin/cmake -E cmake_link_script CMakeFiles/yara_mapper.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/yara_mapper.dir/link.d CMakeFiles/yara_mapper.dir/mapper.cpp.o -o ../../bin/yara_mapper -lrt -lz -lbz2 @@ -76931,6 +76880,93 @@ /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) | ^~~~~~~~ +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 >]': +/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' + 511 | valueConstruct(target_begin, std::move(*source_begin)); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' + 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' + 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' + 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' + 1301 | return resize(me.strings, new_size, tag); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' + 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' + 166 | resize(alignments, length(std::get<0>(sets))); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' + 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:91:36: required from 'void SimdAlignTestCommon__Dynamic_Score_Matrix_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' + 91 | testAlignSimd(::impl::test_align_simd::GlobalAlignTester_(), dynScore, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | TAlignConf(), TLengthParam(), TBandSwitch()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:80:1: required from here + 80 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix_Align) +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' 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/align.h:97: +/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) + | ^~~~~~~~ +/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 >]': +/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' + 511 | valueConstruct(target_begin, std::move(*source_begin)); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' + 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' + 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' + 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' + 1301 | return resize(me.strings, new_size, tag); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' + 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' + 166 | resize(alignments, length(std::get<0>(sets))); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' + 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:74:30: required from 'void SimdAlignTestCommon__Affine_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' + 74 | testAlignSimd(impl::test_align_simd::GlobalAlignTester_(), seqan::Score(2, -1, -1, -3), + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 75 | TAlignConf(), TLengthParam(), TBandSwitch()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:68:1: required from here + 68 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Align) +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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) + | ^~~~~~~~ [ 5%] Linking CXX executable ../../bin/test_align_simd_global_equal_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_global_equal_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_global_equal_length_sse4.dir/link.d CMakeFiles/test_align_simd_global_equal_length_sse4.dir/test_align_simd_global_equal_length.cpp.o -o ../../bin/test_align_simd_global_equal_length_sse4 -lrt -lz -lbz2 @@ -77069,93 +77105,6 @@ /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::Align, seqan::Alloc<> >, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::Tag >]': -/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' - 511 | valueConstruct(target_begin, std::move(*source_begin)); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' - 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' - 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' - 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' - 1301 | return resize(me.strings, new_size, tag); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' - 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' - 166 | resize(alignments, length(std::get<0>(sets))); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' - 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:91:36: required from 'void SimdAlignTestCommon__Dynamic_Score_Matrix_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' - 91 | testAlignSimd(::impl::test_align_simd::GlobalAlignTester_(), dynScore, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | TAlignConf(), TLengthParam(), TBandSwitch()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:80:1: required from here - 80 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix_Align) -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' 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/align.h:97: -/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) - | ^~~~~~~~ -/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 >]': -/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' - 511 | valueConstruct(target_begin, std::move(*source_begin)); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' - 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' - 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' - 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' - 1301 | return resize(me.strings, new_size, tag); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' - 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' - 166 | resize(alignments, length(std::get<0>(sets))); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' - 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:74:30: required from 'void SimdAlignTestCommon__Affine_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' - 74 | testAlignSimd(impl::test_align_simd::GlobalAlignTester_(), seqan::Score(2, -1, -1, -3), - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 75 | TAlignConf(), TLengthParam(), TBandSwitch()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:68:1: required from here - 68 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Align) -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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) - | ^~~~~~~~ [ 6%] Linking CXX executable ../../bin/test_align_simd_global_equal_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_global_equal_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_global_equal_length_avx2.dir/link.d CMakeFiles/test_align_simd_global_equal_length_avx2.dir/test_align_simd_global_equal_length.cpp.o -o ../../bin/test_align_simd_global_equal_length_avx2 -lrt -lz -lbz2 @@ -77381,6 +77330,93 @@ /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) | ^~~~~~~~ +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 >]': +/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' + 511 | valueConstruct(target_begin, std::move(*source_begin)); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' + 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' + 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' + 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' + 1301 | return resize(me.strings, new_size, tag); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' + 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' + 166 | resize(alignments, length(std::get<0>(sets))); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::ScoreMatrix, seqan::ScoreSpecSelectable>; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' + 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:91:36: required from 'void SimdAlignTestCommon__Dynamic_Score_Matrix_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' + 91 | testAlignSimd(::impl::test_align_simd::GlobalAlignTester_(), dynScore, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | TAlignConf(), TLengthParam(), TBandSwitch()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:80:1: required from here + 80 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix_Align) +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' 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/align.h:97: +/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) + | ^~~~~~~~ +/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 >]': +/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 = Align, Alloc<> >, Tag >*; TParam = Align, Alloc<> >, Tag >]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:511:23: required from 'void seqan::_arrayConstructMoveDefault(TSource1, TSource2, TTarget) [with TTarget = Align, Alloc<> >, Tag >*; TSource1 = Align, Alloc<> >, Tag >*; TSource2 = Align, Alloc<> >, Tag >*]' + 511 | valueConstruct(target_begin, std::move(*source_begin)); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1055:31: required from 'void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, False) [with TValue = Align, Alloc<> >, Tag >]' + 1055 | _arrayConstructMoveDefault(source_begin, source_end, target_begin); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1064:31: required from 'void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = Align, Alloc<> >, Tag >]' + 1064 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1683:27: required from 'void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Align, Alloc<> >, Tag >; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]' + 1683 | arrayConstructMove(old_array, old_array + seq_length, begin(seq, Standard())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1697:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_base.h:1301:18: required from 'typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Align, Alloc<> >, Tag >; TSpec = Owner<>; TSize = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]' + 1301 | return resize(me.strings, new_size, tag); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:1149:18: required from 'typename seqan::Size::Type seqan::resize(T&&, TSize) [with T = StringSet, Alloc<> >, Tag >, Owner<> >&; TSize = long unsigned int; typename Size::Type = long unsigned int]' + 1149 | return resize(std::forward(me), new_length, typename DefaultOverflowExplicit::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:166:11: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, int, int) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag]' + 166 | resize(alignments, length(std::get<0>(sets))); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_base.h:216:33: required from 'void testAlignSimd(const TFunctor&, const seqan::Score&, const TAlignConfig&, const TSimdLength&, const TBandFlag&) [with TAlphabet = seqan::SimpleType; TFunctor = impl::test_align_simd::GlobalAlignTester_; TScoreValue = int; TScoreSpec = seqan::Tag; TAlignConfig = seqan::AlignConfig; TSimdLength = seqan::Tag; TBandFlag = seqan::Tag]' + 216 | testAlignSimd(TFunctor(), score, config, TSimdLength()); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:74:30: required from 'void SimdAlignTestCommon__Affine_Align::runTest() [with SEQAN_TParam = std::tuple >, seqan::Tag, seqan::Tag >]' + 74 | testAlignSimd(impl::test_align_simd::GlobalAlignTester_(), seqan::Score(2, -1, -1, -3), + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 75 | TAlignConf(), TLengthParam(), TBandSwitch()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align/test_align_simd_global.h:68:1: required from here + 68 | SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Align) +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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) + | ^~~~~~~~ [ 6%] Linking CXX executable ../../bin/test_align_simd_global_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_global_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_global_variable_length_sse4.dir/link.d CMakeFiles/test_align_simd_global_variable_length_sse4.dir/test_align_simd_global_variable_length.cpp.o -o ../../bin/test_align_simd_global_variable_length_sse4 -lrt -lz -lbz2 @@ -79884,11 +79920,11 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 7%] Linking CXX executable ../../bin/test_align_extend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_extend.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_extend.dir/link.d CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -o ../../bin/test_align_extend -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_extend +[ 7%] Built target test_align_simd_local_variable_length_avx2 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" @@ -80037,6 +80073,19 @@ 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_extend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_extend.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_extend.dir/link.d CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -o ../../bin/test_align_extend -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_extend +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, @@ -80164,19 +80213,6 @@ /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_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_simd_local_variable_length_avx2 -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/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -80734,6 +80770,19 @@ 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_algorithm_avx2.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 -mavx2 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -MF CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o.d -o CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_algorithm.cpp +[ 8%] Linking CXX executable ../../bin/test_align_parallel_interface_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_interface_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_interface_avx2.dir/link.d CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface_avx2 -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_avx2 +make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Building CXX object tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile && /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_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -MF CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d -o CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.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, @@ -80861,19 +80910,6 @@ /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_interface_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_interface_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_interface_avx2.dir/link.d CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface_avx2 -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_avx2 -make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Building CXX object tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile && /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_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -MF CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d -o CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.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_profile/test_align_profile.cpp:36: @@ -81474,6 +81510,19 @@ 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 +[ 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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Built target test_align_profile +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Building CXX object tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /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/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -MF CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d -o CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.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: @@ -81599,19 +81648,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_align_profile -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Building CXX object tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /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/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -MF CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d -o CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.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/alignment_free/test_alignment_free.cpp:38: @@ -82302,6 +82338,17 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Building CXX object tests/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_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/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -MF CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o.d -o CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io/test_bam_io.cpp +[ 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' In file included from /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, @@ -82382,6 +82429,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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/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 @@ -82428,6 +82477,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 +make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +make[4]: 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/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_metaprogramming.dir/test_basic_metaprogramming.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_metaprogramming.dir/test_basic_metaprogramming.cpp.o -MF CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d -o CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_metaprogramming.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/tests/bam_io/test_bam_io_context.h:41, @@ -82482,19 +82544,6 @@ /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' -[ 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/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 > >]' @@ -82663,19 +82712,6 @@ /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) | ^~~~~~~~ -[ 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 -make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -make[4]: 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/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_metaprogramming.dir/test_basic_metaprogramming.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_metaprogramming.dir/test_basic_metaprogramming.cpp.o -MF CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d -o CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_metaprogramming.cpp [ 9%] Linking CXX executable ../../bin/test_basic_metaprogramming 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_metaprogramming.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_metaprogramming.dir/link.d CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -o ../../bin/test_basic_metaprogramming -lrt -lz -lbz2 @@ -82691,10 +82727,6 @@ 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 [ 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 -/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); - | ^ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Built target test_basic_fundamental @@ -82776,6 +82808,23 @@ /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) | ^~~~~~~~ +[ 9%] Linking CXX executable ../../bin/test_basic_concept +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' +[ 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.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_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/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] @@ -82807,19 +82856,6 @@ /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_concept -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' -[ 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.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_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 [ 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 @@ -82943,12 +82979,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = int; T2 = int; T3 = int]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 10%] Linking CXX executable ../../bin/test_basic_aggregate +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_aggregate.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_aggregate.dir/link.d CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o -o ../../bin/test_basic_aggregate -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Built target test_basic_aggregate +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Building CXX object tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.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_allocator.dir/test_basic_allocator.cpp.o -MF CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d -o CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_allocator.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_bam_io_bam_file_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); | ^ -[ 10%] Linking CXX executable ../../bin/test_basic_aggregate -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_aggregate.dir/link.txt --verbose=1 +[ 10%] Linking CXX executable ../../bin/test_basic_allocator +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_allocator.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_allocator.dir/link.d CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -o ../../bin/test_basic_allocator -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Built target test_basic_allocator +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Building CXX object tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.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_parallelism.dir/test_basic_parallelism.cpp.o -MF CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d -o CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_parallelism.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, @@ -83161,30 +83221,6 @@ /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 -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_aggregate.dir/link.d CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o -o ../../bin/test_basic_aggregate -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Built target test_basic_aggregate -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Building CXX object tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.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_allocator.dir/test_basic_allocator.cpp.o -MF CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d -o CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_allocator.cpp -[ 10%] Linking CXX executable ../../bin/test_basic_allocator -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_allocator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_allocator.dir/link.d CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -o ../../bin/test_basic_allocator -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Built target test_basic_allocator -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Building CXX object tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.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_parallelism.dir/test_basic_parallelism.cpp.o -MF CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d -o CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_parallelism.cpp [ 10%] Linking CXX executable ../../bin/test_basic_parallelism 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_parallelism.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_parallelism.dir/link.d CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o -o ../../bin/test_basic_parallelism -lrt -lz -lbz2 @@ -83224,11 +83260,11 @@ 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 -[ 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_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=" @@ -83237,11 +83273,11 @@ 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_proxy +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_proxy.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_proxy.dir/link.d CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -o ../../bin/test_basic_proxy -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_proxy 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=" @@ -83250,11 +83286,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.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_iterator.dir/test_basic_iterator.cpp.o -MF CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d -o CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_iterator.cpp -[ 12%] Linking CXX executable ../../bin/test_basic_proxy -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_proxy.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_proxy.dir/link.d CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -o ../../bin/test_basic_proxy -lrt -lz -lbz2 +[ 12%] 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_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' -[ 12%] Built target test_basic_proxy +[ 12%] Built target test_bam_io make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_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/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=" @@ -84024,10 +84060,6 @@ /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: @@ -84075,6 +84107,10 @@ /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 '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/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 @@ -84524,6 +84560,16 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/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; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:55, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:68: @@ -84549,6 +84595,16 @@ /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/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/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); @@ -84601,6 +84657,16 @@ /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/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/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]' @@ -84958,16 +85024,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/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/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; @@ -85011,16 +85067,6 @@ /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_) | ^~~~~~~~ -/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/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; @@ -85158,16 +85204,6 @@ /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) | ^~~~~~~~ -/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; - | ^~~~~~ /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_)); @@ -86125,9 +86161,22 @@ /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/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/consensus.h:42: +[ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 +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/consensus.h:42: /build/reproducible-path/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())) @@ -87381,6 +87430,22 @@ /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/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/tests/find/test_find.cpp:54: +/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/find/test_find.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/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))); @@ -87430,6 +87495,66 @@ /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/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/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:744:24: 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]' 744 | TConstSeqHIterator seqHIter = seqHIterBegin; @@ -87476,6 +87601,13 @@ /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/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(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_); @@ -87682,102 +87814,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 -In file included from /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/tests/find/test_find.cpp:54: -/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/find/test_find.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, 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, @@ -89093,8 +89129,6 @@ /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 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> @@ -89109,6 +89143,8 @@ /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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 13%] Built target test_find @@ -90031,6 +90067,17 @@ /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/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; + | ^~~~~~ [ 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 @@ -90139,17 +90186,6 @@ /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 = 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; - | ^~~~~~ [ 15%] 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 @@ -90425,11 +90461,11 @@ /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_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_types_iterators +[ 15%] Built target test_graph_msa 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=" @@ -90438,19 +90474,6 @@ 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 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 -[ 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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_msa -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=" -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_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.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_utils.dir/test_graph_types_utils.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_utils.dir/test_graph_types_utils.cpp.o -MF CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d -o CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_utils.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, @@ -90546,6 +90569,19 @@ /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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 15%] Built target test_graph_types_iterators +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=" +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_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.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_utils.dir/test_graph_types_utils.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_utils.dir/test_graph_types_utils.cpp.o -MF CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d -o CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_utils.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, @@ -91183,6 +91219,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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 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 > >]' @@ -91230,6 +91268,8 @@ /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 -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' /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<> >, FunctorConvert, char> > >; 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<> >, FunctorConvert, char> >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' 1491 | _historyClear(it); @@ -91249,6 +91289,13 @@ /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): | ^~~~~~~~~ +[ 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' /build/reproducible-path/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())) @@ -91274,6 +91321,8 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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 /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); @@ -91476,6 +91525,95 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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, + 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 + | ^~~~~~~~~~~~~~ +/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_ = 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)); @@ -91502,6 +91640,13 @@ /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/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 >, 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 > > >]' @@ -91565,6 +91710,25 @@ /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: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/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_); @@ -91689,6 +91853,44 @@ /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 '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(); @@ -92606,6 +92808,22 @@ /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/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, 5, seqan::Tag >, 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, 5, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -92852,6 +93070,32 @@ /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 + | ^~~~~~~~~~~~~~ /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, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, 6, seqan::Tag >, 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, 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>; TValue = seqan::Triple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -92934,6 +93178,214 @@ /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) | ^~~~~~ +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); @@ -93146,422 +93598,6 @@ /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) | ^~~~~~ -[ 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/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 - | ^~~~~~~~~~~~~~ -/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 > >, 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<>]' @@ -95276,32 +95312,6 @@ 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/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/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, @@ -95455,12 +95465,6 @@ /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: -/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/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: @@ -96602,18 +96606,38 @@ /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::MMap<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::MMap<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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/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; | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/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 +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 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 = 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>]' @@ -97731,6 +97755,18 @@ /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 @@ -98724,6 +98760,16 @@ /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 @@ -98859,16 +98905,6 @@ /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 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/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:45: /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] @@ -99450,13 +99486,6 @@ 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 -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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:42: @@ -99885,19 +99914,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_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/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]', @@ -99910,6 +99926,39 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:129:30: note: 'shapeB' declared here 129 | Shape shapeB(pattern); | ^~~~~~ +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_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 +[ 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_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=" +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/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, @@ -100059,19 +100108,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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 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: @@ -106937,6 +106973,22 @@ /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/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]; + | ^ 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 > @@ -107158,22 +107210,6 @@ /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(); @@ -108794,6 +108830,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 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) | ^~~~~~ +[ 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 /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, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, 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, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -109406,6 +109444,17 @@ /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) | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Built target test_index_fm +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.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_vstree.dir/test_index_vstree.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_vstree.dir/test_index_vstree.cpp.o -MF CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d -o CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.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, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, 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, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -109822,19 +109871,6 @@ /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) | ^~~~~~ -[ 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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 18%] Built target test_index_fm -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.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_vstree.dir/test_index_vstree.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_vstree.dir/test_index_vstree.cpp.o -MF CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d -o CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.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, @@ -112681,6 +112717,19 @@ 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_view.dir/test_index_view.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_view.dir/test_index_view.cpp.o -MF CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d -o CMakeFiles/test_index_view.dir/test_index_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp +[ 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 In file included from /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, @@ -112835,19 +112884,151 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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 +In file included from /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_finder.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/bits/refwrap.h:39, + from /usr/include/c++/14/vector:68, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.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: +/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: @@ -112890,6 +113071,22 @@ /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: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 > @@ -112939,6 +113136,32 @@ /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/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: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 > @@ -113002,6 +113225,43 @@ /usr/include/c++/14/bits/stl_function.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 > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/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 + | ^~~~~~~~~~~~~~~ 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 @@ -113045,6 +113305,18 @@ /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/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: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 { @@ -113091,564 +113363,6 @@ /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: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<> >]' - 62 | TTFactoryView factoryView = view(factory); - | ~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:23: warning: implicitly-declared 'constexpr seqan::Index >, void>, seqan::IndexSa<> >& seqan::Index >, void>, seqan::IndexSa<> >::operator=(const seqan::Index >, void>, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] - 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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 >, void>, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::ContainerView >, void>; 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/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 64 | TIter it1(index); - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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::_historyClear(Iter > >&) [with TIndex = Index >, void>, 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 = ContainerView >, void>; 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 >, void>, seqan::IndexSa<> >; 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 >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' - 314 | Iter > > > it(_host(factory, typename IsView::Type())); - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 63 | TIterView it2 = getObject(factoryView, 0u); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 64 | TIter it1(index); - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' - 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 >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' - 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 >, IndexSa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:73:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 73 | goNext(it1); - | ~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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 >, void>, 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 >, void>, IndexSa<> >; 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 >, void>, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' - 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 >, void>, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' - 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 >, void>, IndexSa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:74:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 74 | goNext(it2); - | ~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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) : - | ^~~~~~~~ -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 >, IndexSa<> >; TSource = Index >, IndexSa<> >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexSa<> >; TValue2 = Index >, IndexSa<> >]' - 645 | assign(_dataValue(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 = Index >, IndexSa<> >]' - 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 = Index >, IndexSa<> >; typename Reference > >::Type = Index >, IndexSa<> >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:192:17: required from 'typename seqan::Host > > >::Type& seqan::_host(Factory > >&, const False&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; typename Host > > >::Type = Index >, IndexSa<> >]' - 192 | return value(factory._index); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:35: required from 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]' - 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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<> >]' - 62 | TTFactoryView factoryView = view(factory); - | ~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexSa<> >& seqan::Index >, seqan::IndexSa<> >::operator=(const seqan::Index >, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -/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) : - | ^~~~~ -/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 >, void>, 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 >, void>, 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 = ContainerView >, void>; 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 >, void>, seqan::IndexSa<> >; 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 >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' - 314 | Iter > > > it(_host(factory, typename IsView::Type())); - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 63 | TIterView it2 = getObject(factoryView, 0u); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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) : - | ^~~~~~~~ -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]': -/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::ContainerView >, void>]' - 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::ContainerView >, void>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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/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::ContainerView >, void>]' - 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::ContainerView >, void>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/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_finder.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/bits/refwrap.h:39, - from /usr/include/c++/14/vector:68, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.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: -/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 > @@ -113808,6 +113522,13 @@ /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/tests/index/test_index_finder.cpp:39: /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 > { @@ -113821,6 +113542,24 @@ /usr/include/c++/14/bits/stl_function.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: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<> >]' + 62 | TTFactoryView factoryView = view(factory); + | ~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:23: warning: implicitly-declared 'constexpr seqan::Index >, void>, seqan::IndexSa<> >& seqan::Index >, void>, seqan::IndexSa<> >::operator=(const seqan::Index >, void>, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] + 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 >, void>, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::ContainerView >, void>; TSpec = void]' + 88 | Index(Index const & other) : + | ^~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:220: /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, Alloc<> >; 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::Alloc<> >; TSpec = seqan::FMIndex<>; TSpecFinder = const seqan::Tag; TIndex = seqan::Index, seqan::Alloc<> >, seqan::FMIndex<> >]' @@ -113993,6 +113732,116 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter > >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA > >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter 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/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 64 | TIter it1(index); + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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::_historyClear(Iter > >&) [with TIndex = Index >, void>, 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 = ContainerView >, void>; 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 >, void>, seqan::IndexSa<> >; 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 >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' + 314 | Iter > > > it(_host(factory, typename IsView::Type())); + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 63 | TIterView it2 = getObject(factoryView, 0u); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 64 | TIter it1(index); + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' + 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 >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' + 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 >, IndexSa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:73:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 73 | goNext(it1); + | ~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/find_index.h: In instantiation of 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet > >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = char [7]]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:82:9: required from 'void IndexFinderTest__DefaultFinder::runTest() [with SEQAN_TParam = seqan::Index > >, seqan::FMIndex<> >]' 82 | find(finder, "needle"); @@ -114061,6 +113910,34 @@ /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_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, void>, 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 >, void>, IndexSa<> >; 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 >, void>, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' + 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 >, void>, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' + 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 >, void>, IndexSa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:74:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 74 | goNext(it2); + | ~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/find_index.h: In instantiation of 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = String >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = char [7]]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:82:9: required from 'void IndexFinderTest__DefaultFinder::runTest() [with SEQAN_TParam = seqan::Index >, seqan::FMIndex<> >]' 82 | find(finder, "needle"); @@ -114197,6 +114074,70 @@ /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/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 >, IndexSa<> >; TSource = Index >, IndexSa<> >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexSa<> >; TValue2 = Index >, IndexSa<> >]' + 645 | assign(_dataValue(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 = Index >, IndexSa<> >]' + 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 = Index >, IndexSa<> >; typename Reference > >::Type = Index >, IndexSa<> >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:192:17: required from 'typename seqan::Host > > >::Type& seqan::_host(Factory > >&, const False&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; typename Host > > >::Type = Index >, IndexSa<> >]' + 192 | return value(factory._index); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:35: required from 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]' + 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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<> >]' + 62 | TTFactoryView factoryView = view(factory); + | ~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexSa<> >& seqan::Index >, seqan::IndexSa<> >::operator=(const seqan::Index >, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +/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) : + | ^~~~~ +/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 >, void>, 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 >, void>, 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 = ContainerView >, void>; 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 >, void>, seqan::IndexSa<> >; 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 >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' + 314 | Iter > > > it(_host(factory, typename IsView::Type())); + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 63 | TIterView it2 = getObject(factoryView, 0u); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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) : + | ^~~~~~~~ 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]]' @@ -114593,6 +114534,54 @@ /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/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]': +/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::ContainerView >, void>]' + 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::ContainerView >, void>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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/index/index_fm.h: In instantiation of 'void seqan::_findFirstIndex(Finder >, TSpecFinder>&, const TPattern&, FinderSTree) [with TText = String, Packed<> >; TSpec = void; TConfig = FMIndexConfig; TSpecFinder = const Tag; TPattern = char [2]; 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 = String, Packed<> >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = char [2]]' 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); @@ -114875,6 +114864,53 @@ /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) : | ^~~~~~~~ +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/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::ContainerView >, void>]' + 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::ContainerView >, void>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: 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) + | ^~~~~~~~ /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); @@ -115685,215 +115721,6 @@ /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) : | ^~~~~ -[ 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 - | ^~~~~~~~~~~~~~ -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/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(); @@ -115976,55 +115803,6 @@ /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 '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(); @@ -116145,158 +115923,6 @@ /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/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_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::String, seqan::Packed<> >*; TParam = const seqan::String, seqan::Packed<> >&]': /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 = String, Packed<> >*; TParam = const String, Packed<> >&]' @@ -116948,13 +116574,6 @@ /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/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 '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(); @@ -117579,6 +117198,8 @@ /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) | ^~~~~~ +[ 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 /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, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, 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, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -117899,6 +117520,12 @@ /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) | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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=" /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_); @@ -117939,102 +117566,11 @@ /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 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) : - | ^~~~~~~~ +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 /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_); @@ -118115,68 +117651,6 @@ /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/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::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_); @@ -118621,6 +118095,568 @@ /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/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 + | ^~~~~~~~~~~~~~ +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 >, 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(); @@ -120772,6 +120808,19 @@ 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_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 +[ 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_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=" +make[4]: 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[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 In file included from /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, @@ -120925,6 +120974,158 @@ /usr/include/c++/14/bits/stl_function.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_swift.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/tests/index/test_index_swift.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/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: @@ -121168,191 +121369,6 @@ /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 - | ^~~~~~~~~~~~~~~ -[ 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_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=" -make[4]: 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[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 -In file included from /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_swift.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/tests/index/test_index_swift.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 - | ^~~~~~~~~~~~~~ -[ 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/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: @@ -121369,6 +121385,13 @@ /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: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 @@ -121640,6 +121663,32 @@ /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_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 +[ 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_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 +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.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_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: @@ -121773,6 +121822,86 @@ /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/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: +/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_basic_observable.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/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: @@ -121812,6 +121941,13 @@ /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: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/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< @@ -121898,6 +122034,19 @@ /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/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, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48: +/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: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 > >]' @@ -121991,119 +122140,6 @@ /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) | ^~~~~~~~ -[ 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_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 -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.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_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/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: -/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_basic_observable.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, - 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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48: -/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] @@ -122140,8 +122176,6 @@ /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: @@ -122188,17 +122222,6 @@ /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_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 > >]' @@ -122281,6 +122304,19 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 +[ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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=" @@ -122415,6 +122451,14 @@ /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/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/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: @@ -122501,14 +122545,6 @@ /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/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/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 @@ -122662,14 +122698,6 @@ /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/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/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]' @@ -122696,6 +122724,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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 + | ^~~~~~~~~~~~~~ /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); @@ -123116,6 +123152,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 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 @@ -123129,6 +123167,17 @@ /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_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/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] @@ -123199,10 +123248,6 @@ /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); | ^~~~~~~~ -[ 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' 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 >]' @@ -123236,15 +123281,6 @@ /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%] 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/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: @@ -124284,6 +124320,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 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 @@ -124298,8 +124347,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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 In file included from /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, @@ -124379,182 +124426,6 @@ /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 - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 -/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); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = double; TValue2 = int]' - 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:660:18: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_QueryAtBoundary() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 660 | findIntervals(resultstmp, tmpT, 20, 30); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:108:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1562 | 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:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1575 | 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:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1598 | 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: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': -/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 = int; TValue2 = int]' - 1502 | findIntervals(result, it.g, it.pm, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:460:22: required from 'void seqan::IntervalTreeTest_IntervalTree() [with TValue = int]' - 460 | findIntervals(result, itree, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:669:39: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_IntervalTree__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 669 | IntervalTreeTest_IntervalTree(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:109:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/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) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = int; TInterval = IntervalAndCargo]' - 1363 | addInterval(itree.g, itree.pm, interval); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:613:20: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' - 613 | addInterval(itree, intervals[4]); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 687 | IntervalTreeTest_AddInterval(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1286 | 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:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1299 | 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:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1329 | 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: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1732:33: required from 'void seqan::findIntervalsExcludeTouching(String&, const IntervalTree&, TValue) [with TValue = int; TCargo = int]' - 1732 | findIntervalsExcludeTouching(result, tree.g, tree.pm, query); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:628:37: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' - 628 | findIntervalsExcludeTouching(result, itree, 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 687 | IntervalTreeTest_AddInterval(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1667:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1667 | 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:1679:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1679 | 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:1701:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' 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, 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: 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); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' - 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:285:22: required from 'void seqan::IntervalTreeTest_FindIntervalsIntervals() [with TValue = int; TConstructSpec = const Tag]' - 285 | findIntervals(result, itree, (TValue)10.0, (TValue)20.0); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:723:64: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 723 | IntervalTreeTest_FindIntervalsIntervals(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:117:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1562 | 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:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1575 | 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:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1598 | 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/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, @@ -124646,6 +124517,13 @@ /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/tests/modifier/test_modifier.cpp:40: /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier_string.h:255:28: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 255 | struct LowerFunctor : std::unary_function @@ -124987,6 +124865,164 @@ /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/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); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = double; TValue2 = int]' + 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:660:18: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_QueryAtBoundary() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 660 | findIntervals(resultstmp, tmpT, 20, 30); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:108:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1562 | 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:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1575 | 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:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1598 | 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: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': +/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 = int; TValue2 = int]' + 1502 | findIntervals(result, it.g, it.pm, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:460:22: required from 'void seqan::IntervalTreeTest_IntervalTree() [with TValue = int]' + 460 | findIntervals(result, itree, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:669:39: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_IntervalTree__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 669 | IntervalTreeTest_IntervalTree(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:109:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/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) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = int; TInterval = IntervalAndCargo]' + 1363 | addInterval(itree.g, itree.pm, interval); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:613:20: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' + 613 | addInterval(itree, intervals[4]); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 687 | IntervalTreeTest_AddInterval(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1286 | 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:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1299 | 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:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1329 | 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: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1732:33: required from 'void seqan::findIntervalsExcludeTouching(String&, const IntervalTree&, TValue) [with TValue = int; TCargo = int]' + 1732 | findIntervalsExcludeTouching(result, tree.g, tree.pm, query); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:628:37: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' + 628 | findIntervalsExcludeTouching(result, itree, 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 687 | IntervalTreeTest_AddInterval(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1667:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1667 | 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:1679:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1679 | 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:1701:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' 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, 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: 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); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' + 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:285:22: required from 'void seqan::IntervalTreeTest_FindIntervalsIntervals() [with TValue = int; TConstructSpec = const Tag]' + 285 | findIntervals(result, itree, (TValue)10.0, (TValue)20.0); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:723:64: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 723 | IntervalTreeTest_FindIntervalsIntervals(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:117:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1562 | 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:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1575 | 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:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1598 | 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/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/stream.h:61: @@ -125157,11 +125193,11 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_misc -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_misc.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_misc.dir/link.d CMakeFiles/test_misc.dir/test_misc.cpp.o -o ../../bin/test_misc -lrt -lz -lbz2 +[ 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_misc +[ 20%] Built target test_modifier 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" @@ -125170,6 +125206,19 @@ 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_misc +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_misc.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_misc.dir/link.d CMakeFiles/test_misc.dir/test_misc.cpp.o -o ../../bin/test_misc -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_misc +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, @@ -125251,8 +125300,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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 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 @@ -125696,17 +125743,6 @@ /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 &) | ^~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp:35: @@ -126137,6 +126173,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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/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: @@ -126146,6 +126184,11 @@ /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 -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/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 @@ -126203,8 +126246,6 @@ /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/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] @@ -126215,190 +126256,6 @@ 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 '< >' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/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/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%] 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/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: @@ -126547,8 +126404,6 @@ /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 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 @@ -126613,9 +126468,6 @@ /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_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 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 > @@ -126697,7 +126549,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend /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 | ^~~~~~~~~~~~~~ @@ -126716,8 +126567,6 @@ /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/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=" 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, @@ -126731,9 +126580,6 @@ /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 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' 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 @@ -126777,8 +126623,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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 { @@ -126832,6 +126676,83 @@ /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/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, @@ -126908,6 +126829,208 @@ /usr/include/c++/14/bits/stl_function.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_2.cpp:42: +/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) + | ^~~~~~~~ +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/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' +[ 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: @@ -126994,12 +127117,6 @@ /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/alignment_free.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp:42: -/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 '< >' 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 @@ -127007,10 +127124,6 @@ /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/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/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, @@ -127096,57 +127209,6 @@ /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/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: @@ -127175,32 +127237,6 @@ /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 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())) @@ -127263,11 +127299,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 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 +[ 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_multiple_translation_units +[ 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=" @@ -127373,8 +127409,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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 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 @@ -127382,15 +127416,6 @@ /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_platform.dir/link.d CMakeFiles/test_platform.dir/test_platform.cpp.o -o ../../bin/test_platform -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_platform -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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 -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/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp:41: /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] @@ -127411,8 +127436,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 21%] Building CXX object tests/random/CMakeFiles/test_random.dir/test_random.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /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/random/CMakeFiles/test_random.dir/test_random.cpp.o -MF CMakeFiles/test_random.dir/test_random.cpp.o.d -o CMakeFiles/test_random.dir/test_random.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random/test_random.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 @@ -127702,6 +127725,32 @@ /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/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 > + | ^~~~~~~~~~~~~~ +/usr/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/pipe/test_pipe.h:83:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 83 | 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 + | ^~~~~~~~~~~~~~~ +[ 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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_platform +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[4]: 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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/random/CMakeFiles/test_random.dir/test_random.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /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/random/CMakeFiles/test_random.dir/test_random.cpp.o -MF CMakeFiles/test_random.dir/test_random.cpp.o.d -o CMakeFiles/test_random.dir/test_random.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random/test_random.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, @@ -127789,19 +127838,6 @@ /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/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 > - | ^~~~~~~~~~~~~~ -/usr/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/pipe/test_pipe.h:83:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 83 | 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/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 @@ -127811,6 +127847,19 @@ | ^~~~~~~~~~~~~~ [ 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 +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: +/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, + 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/stream.h:61: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]': +/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]; + | ^ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 @@ -127947,19 +127996,6 @@ /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 >& 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: -/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, - 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/stream.h:61: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]': -/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]; - | ^ 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] @@ -128328,6 +128364,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/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: @@ -129060,19 +129109,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/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/reduced_aminoacid/test_reduced_aminoacid.h:42, @@ -131471,6 +131507,15 @@ /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/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: +/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); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_roi_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] 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] @@ -131486,45 +131531,24 @@ /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/roi_io/test_roi_io.cpp:37: -/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); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_roi_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] [ 21%] Linking CXX executable ../../bin/test_roi_io cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_roi_io.dir/link.txt --verbose=1 -[ 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_roi_io.dir/link.d CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o -o ../../bin/test_roi_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_roi_io +[ 21%] Built target test_roi_io make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_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/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/score/CMakeFiles/test_score.dir/test_score.cpp.o +[ 21%] Building CXX object tests/score/CMakeFiles/test_score.dir/test_score.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score && /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/score/CMakeFiles/test_score.dir/test_score.cpp.o -MF CMakeFiles/test_score.dir/test_score.cpp.o.d -o CMakeFiles/test_score.dir/test_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.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_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_rna_io -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 -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 In file included from /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_combination.cpp:43: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:50: /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 | ^~~~~~~~~~~~~~ @@ -131534,10 +131558,7 @@ 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/tests/seeds/test_seeds_combination.cpp:42: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:41: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -131615,11 +131636,60 @@ /usr/include/c++/14/bits/stl_function.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/tests/score/test_score.cpp: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 + | ^~~~~~~~~~~~~~ +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 + | ^~~~~~~~~~~~~~~ +[ 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_rna_io +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 +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 +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/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/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:50: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_combination.cpp:43: /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 | ^~~~~~~~~~~~~~ @@ -131629,7 +131699,10 @@ 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/score/test_score.cpp: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_combination.cpp:42: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -131700,6 +131773,13 @@ /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/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, @@ -131760,43 +131840,19 @@ /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/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/tests/score/test_score.cpp: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 - | ^~~~~~~~~~~~~~ -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: +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: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = 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 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/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -132061,31 +132117,25 @@ /usr/include/c++/14/bits/stl_function.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/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&, 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 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]': +/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; | ^~~~~~ -[ 22%] Linking CXX executable ../../bin/test_seeds_combination -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_combination.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_combination.dir/link.d CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -o ../../bin/test_seeds_combination -lrt -lz -lbz2 +[ 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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_seeds_combination +[ 22%] Built target test_score 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=" @@ -132094,25 +132144,11 @@ 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_extension.dir/test_seeds_extension.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_extension.dir/test_seeds_extension.cpp.o -MF CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d -o CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp -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; - | ^~~~~~ -[ 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_seeds_combination +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_combination.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_combination.dir/link.d CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -o ../../bin/test_seeds_combination -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_seeds_combination make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_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/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=" @@ -132518,13 +132554,6 @@ /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, @@ -132619,17 +132648,10 @@ /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/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 - | ^~~~~~~~~~~~~~~ +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 | ^~~~~~~~~~~~~~~ @@ -132693,6 +132715,20 @@ /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/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: @@ -133077,6 +133113,66 @@ /usr/include/c++/14/bits/stl_function.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_base.cpp:41: +/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/stream.h:62, @@ -133174,66 +133270,6 @@ 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_base.cpp:41: -/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: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_chained.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 @@ -133307,15 +133343,6 @@ /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/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 @@ -133342,13 +133369,6 @@ /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 > @@ -133398,32 +133418,6 @@ /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: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: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 > @@ -133569,6 +133563,76 @@ /usr/include/c++/14/bits/stl_function.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/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/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: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 > @@ -133588,13 +133652,6 @@ /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: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/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 851 | public std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ @@ -133784,27 +133841,6 @@ /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] @@ -133823,8 +133859,6 @@ 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_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_base.dir/link.d CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -o ../../bin/test_seeds_seed_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Linking CXX executable ../../bin/test_seeds_seed_chained -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_chained.dir/link.txt --verbose=1 [ 23%] Built target test_seeds_seed_base make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -133834,6 +133868,8 @@ 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_diagonal.dir/test_seeds_seed_diagonal.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_diagonal.dir/test_seeds_seed_diagonal.cpp.o -MF CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d -o CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_diagonal.cpp +[ 23%] Linking CXX executable ../../bin/test_seeds_seed_chained +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_chained.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_chained.dir/link.d CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -o ../../bin/test_seeds_seed_chained -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_chained @@ -133939,6 +133975,66 @@ /usr/include/c++/14/bits/stl_function.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/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, @@ -134036,7 +134132,7 @@ 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: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.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 | ^~~~~~~~~~~~~~ @@ -134055,63 +134151,19 @@ /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/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: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_base.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 - | ^~~~~~~~~~~~~~ +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: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/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 | ^~~~~~~~~~~~~~ @@ -134153,22 +134205,6 @@ /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/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 @@ -134195,22 +134231,6 @@ /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/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 > @@ -134323,20 +134343,6 @@ /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: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 - | ^~~~~~~~~~~~~~~ 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 @@ -134344,24 +134350,12 @@ /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/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_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_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/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ @@ -134438,6 +134432,69 @@ /usr/include/c++/14/bits/stl_function.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/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 > @@ -134646,27 +134703,6 @@ /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] @@ -135289,153 +135325,6 @@ /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_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 - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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_banded_chain_alignment_interface.cpp:43: -/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: @@ -135679,6 +135568,174 @@ /usr/include/c++/14/bits/stl_function.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/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/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/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_banded_chain_alignment_interface.cpp:43: +/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/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: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: @@ -135695,13 +135752,6 @@ /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/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 @@ -135922,20 +135972,6 @@ /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: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> @@ -135950,20 +135986,6 @@ /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, - 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/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: @@ -136066,6 +136088,20 @@ /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::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' 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, + 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 + | ^~~~~~~~~~~~~~~ /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; @@ -136684,55 +136720,6 @@ /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::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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_banded_chain_alignment_interface.cpp:40: -/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; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/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 >, SuffixSegment>; TSequenceV = Segment >, 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 >, SuffixSegment>; TSequenceV = Segment >, 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 >; TSequenceV = String >; 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 >; TSequenceV = String >; 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 >; 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/tests/seeds/test_banded_chain_alignment_interface.cpp:123:42: required from 'void SEQAN_TEST_test_banded_chain_alignment_align_linear_global_two_scores() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 123 | int result = bandedChainAlignment(alignment, seedChain, scoringSchemeAnchor, scoringSchemeGap, AlignConfig(), 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:2487:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::SuffixSegment>::Segment(const seqan::Segment >, 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, - 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_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) - | ^~~~~~~~ -/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::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' - 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::_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_); @@ -137146,6 +137133,101 @@ /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/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_banded_chain_alignment_interface.cpp:40: +/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; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/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 >, SuffixSegment>; TSequenceV = Segment >, 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 >, SuffixSegment>; TSequenceV = Segment >, 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 >; TSequenceV = String >; 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 >; TSequenceV = String >; 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 >; 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/tests/seeds/test_banded_chain_alignment_interface.cpp:123:42: required from 'void SEQAN_TEST_test_banded_chain_alignment_align_linear_global_two_scores() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 123 | int result = bandedChainAlignment(alignment, seedChain, scoringSchemeAnchor, scoringSchemeGap, AlignConfig(), 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:2487:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::SuffixSegment>::Segment(const seqan::Segment >, 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, + 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_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) + | ^~~~~~~~ +/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::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' + 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, 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/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; @@ -137190,6 +137272,53 @@ /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/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) + | ^~~~~~~~ /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 >, InfixSegment>; 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 >, 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; @@ -137378,52 +137507,6 @@ /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) | ^~~~~~~~ -/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/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 > >]' @@ -137519,53 +137602,6 @@ /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::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' 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/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) - | ^~~~~~~~ /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:624:58: 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 >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' 624 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()) - _min(0, 1 + upperDiagonal(band)); @@ -140695,15 +140731,6 @@ /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 @@ -141231,6 +141258,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_packed.h:163:14: note: because 'seqan::String, seqan::Packed<> >' has user-provided 'seqan::String >& seqan::String >::operator=(const seqan::String >&) [with TValue = seqan::SimpleType; THostspec = seqan::Alloc<>]' 163 | String & operator =(String const & source) | ^~~~~~~~ +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; + | ^~~~~~ In copy constructor 'CountingChar::CountingChar(const CountingChar&)', inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = CountingChar; _Args = {const CountingChar&}]' at /usr/include/c++/14/bits/stl_construct.h:119:7, inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = const CountingChar*; _ForwardIterator = CountingChar*]' at /usr/include/c++/14/bits/stl_uninitialized.h:120:21, @@ -141261,28 +141297,6 @@ /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 @@ -141390,6 +141404,28 @@ /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]': @@ -143085,6 +143121,8 @@ /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 = 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 /build/reproducible-path/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)); @@ -143155,6 +143193,17 @@ /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/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/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; @@ -143415,54 +143464,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/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); - | ^ -[ 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/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 -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' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long 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 int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long 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; - | ^~~~~~ -[ 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/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/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, @@ -143557,52 +143558,45 @@ /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 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/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); + | ^ +/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] 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 +/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 = 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: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long 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: 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 +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long 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/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: @@ -143700,6 +143694,48 @@ /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 = 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, @@ -143942,11 +143978,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 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 +[ 25%] Linking CXX executable ../../bin/test_stream +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_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 -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_stream.dir/link.d CMakeFiles/test_stream.dir/test_stream.cpp.o -o ../../bin/test_stream -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 +[ 25%] Built target test_stream make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_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/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=" @@ -144570,11 +144606,11 @@ /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_stream -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_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 -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_stream.dir/link.d CMakeFiles/test_stream.dir/test_stream.cpp.o -o ../../bin/test_stream -lrt -lz -lbz2 +[ 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_stream +[ 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=" @@ -144754,6 +144790,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 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' +[ 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' +[ 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 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 = Dependent >]' 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] @@ -144770,19 +144819,6 @@ /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); | ^ -[ 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/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 -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 In file included from /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: @@ -144876,19 +144912,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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: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_ = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::PrefixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::PrefixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/translation/translation.h:290:37: required from 'void seqan::_translateImplLoop(StringSet, TSpec1>, TSpec2>&, unsigned int, const StringSet&, const GeneticCode&, const Frames_<6>&) [with TSpec1 = Alloc<>; TSpec2 = Owner<>; TSpec3 = Dependent >; TInString = String, Alloc<> >; GeneticCodeSpec CODE_SPEC = seqan::CANONICAL]' @@ -145349,6 +145372,19 @@ /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_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/include/seqan/stream.h:62, @@ -145794,6 +145830,10 @@ /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 @@ -145807,10 +145847,20 @@ 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*)': -/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 file included from /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, @@ -145895,6 +145945,18 @@ /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 = 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; + | ^~~~~~ 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, @@ -145946,39 +146008,17 @@ /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: 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); + | ^ /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; - | ^~~~~~ [ 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' -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%] Built target demo_blast_blast_in_lowlevel 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' @@ -145988,10 +146028,6 @@ 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 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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); - | ^ In file included from /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, @@ -146086,6 +146122,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 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, @@ -146116,32 +146165,6 @@ /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: @@ -146264,6 +146287,32 @@ /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: @@ -146389,32 +146438,6 @@ /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: @@ -146509,6 +146532,47 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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' +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 + | ^~~~~~~~~~~~~~ +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/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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp:4: @@ -146592,14 +146656,6 @@ /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: -/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/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, @@ -146611,26 +146667,6 @@ /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/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] @@ -146659,24 +146695,24 @@ /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=" @@ -148814,92 +148850,6 @@ /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/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: @@ -148909,17 +148859,6 @@ /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/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: @@ -148929,21 +148868,6 @@ /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: -/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: /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 @@ -148981,19 +148905,6 @@ /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< @@ -149301,6 +149212,103 @@ /usr/include/c++/14/bits/stl_function.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/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/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 @@ -149308,6 +149316,34 @@ /usr/include/c++/14/bits/stl_function.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 > >]' @@ -149409,8 +149445,6 @@ 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, @@ -149488,6 +149522,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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: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 @@ -149993,6 +150029,19 @@ 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%] 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 +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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 In file included from /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, @@ -150115,8 +150164,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 30%] Linking CXX executable ../bin/demo_dox_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 +[ 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 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 > >]' @@ -150143,15 +150203,6 @@ /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 -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' -[ 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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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' /build/reproducible-path/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())) @@ -150177,8 +150228,6 @@ /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%] 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 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 > >]' @@ -150263,19 +150312,32 @@ /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_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 +[ 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 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 +[ 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_metaprogramming_control.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_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.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_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%] 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%] 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: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, @@ -150401,50 +150463,24 @@ /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_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 -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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%] 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_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 [ 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_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_bam_io_bam_tags_dict +[ 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' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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%] 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%] Built target demo_dox_basic_metaprogramming_math +[ 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=" @@ -150453,13 +150489,11 @@ 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 -[ 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 -[ 31%] 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_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 +[ 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_basic_simple_type_construction +[ 31%] Built target demo_dox_bam_io_bam_tags_dict 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=" @@ -150468,9 +150502,11 @@ 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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +[ 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_metaprogramming_switch +[ 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=" @@ -150836,6 +150872,7 @@ /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 -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 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 @@ -150843,7 +150880,6 @@ /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_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 @@ -150853,6 +150889,7 @@ 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/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 @@ -150860,7 +150897,6 @@ /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/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:45: /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] @@ -154246,6 +154282,17 @@ 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_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp [ 32%] Linking CXX executable ../bin/demo_dox_consensus_consensus_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_consensus_consensus_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_consensus_consensus_alignment.dir/link.d CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -o ../bin/demo_dox_consensus_consensus_alignment -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_consensus_consensus_alignment +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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 +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_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_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_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_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, @@ -154339,31 +154386,6 @@ /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_consensus_consensus_alignment.dir/link.d CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -o ../bin/demo_dox_consensus_consensus_alignment -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_consensus_consensus_alignment -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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 -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_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_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_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.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> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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, @@ -154450,6 +154472,20 @@ /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/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/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 @@ -154471,11 +154507,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 32%] Linking CXX executable ../bin/demo_dox_graph_algorithms_bellman_ford_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_bellman_ford_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_bellman_ford_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 32%] Linking CXX executable ../bin/demo_dox_graph_algorithms_all_pairs_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_all_pairs_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_all_pairs_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_all_pairs_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_all_pairs_shortest_path +[ 32%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -154484,11 +154522,9 @@ 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_breadth_first_search.dir/dox/graph_algorithms/breadth_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_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp -[ 32%] Linking CXX executable ../bin/demo_dox_graph_algorithms_bellman_ford_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_bellman_ford_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_bellman_ford_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm -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_graph_algorithms_all_pairs_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_all_pairs_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_bellman_ford_algorithm +[ 32%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path 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 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -154590,20 +154626,6 @@ /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: -/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, @@ -154690,6 +154712,20 @@ /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/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/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 @@ -155086,6 +155122,17 @@ 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_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp [ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_floyd_warshall_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_floyd_warshall_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_floyd_warshall_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm -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_floyd_warshall_algorithm +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.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_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/heaviest_increasing_subsequence.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, @@ -155179,31 +155226,6 @@ /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_floyd_warshall_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm -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_floyd_warshall_algorithm -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.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_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/heaviest_increasing_subsequence.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> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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, @@ -155311,11 +155333,25 @@ /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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +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 + | ^~~~~~~~~~~~~~ +[ 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_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=" @@ -155324,11 +155360,11 @@ 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_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 -[ 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_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 +[ 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_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%] 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=" @@ -155537,6 +155573,8 @@ /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_kruskals_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_kruskals_algorithm.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> @@ -155551,8 +155589,6 @@ /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_kruskals_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_kruskals_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_kruskals_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_kruskals_algorithm -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_kruskals_algorithm @@ -155804,6 +155840,19 @@ 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_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_prims_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_prims_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_prims_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_prims_algorithm -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_prims_algorithm +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.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_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.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, @@ -155883,8 +155932,6 @@ /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_prims_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_prims_algorithm.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 @@ -155892,7 +155939,6 @@ /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_graph_algorithms_prims_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_prims_algorithm -lrt -lz -lbz2 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 @@ -155900,16 +155946,6 @@ /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' -[ 34%] Built target demo_dox_graph_algorithms_prims_algorithm -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.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_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.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> @@ -156031,11 +156067,11 @@ /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_strongly_connected_components -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_strongly_connected_components.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_strongly_connected_components.dir/link.d CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -o ../bin/demo_dox_graph_algorithms_strongly_connected_components -lrt -lz -lbz2 +[ 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_strongly_connected_components +[ 34%] Built target demo_dox_graph_algorithms_topological_sort make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -156044,11 +156080,11 @@ 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 +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_strongly_connected_components +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_strongly_connected_components.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_strongly_connected_components.dir/link.d CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -o ../bin/demo_dox_graph_algorithms_strongly_connected_components -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 +[ 34%] Built target demo_dox_graph_algorithms_strongly_connected_components 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=" @@ -156272,8 +156308,6 @@ /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 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 @@ -156287,6 +156321,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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 @@ -156418,6 +156454,19 @@ 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_UNUSED_shape.dir/dox/index/UNUSED_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_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape.cpp +[ 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 +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: 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 +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_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_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_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash.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, @@ -156564,19 +156613,6 @@ /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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: 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 -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_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_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_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash.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: @@ -157238,6 +157274,12 @@ | ^~~~~~~~~~~~~~~ [ 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=" In file included from /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, @@ -157313,6 +157355,9 @@ /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 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' 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 @@ -157320,15 +157365,6 @@ /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_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/file.h:92: @@ -158786,6 +158822,17 @@ 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_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, @@ -158868,17 +158915,6 @@ /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_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/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 @@ -159186,115 +159222,6 @@ /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: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/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, @@ -159380,35 +159307,6 @@ /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 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/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 @@ -159473,116 +159371,254 @@ /usr/include/c++/14/bits/stl_function.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 > - | ^~~~~~~~~~~~~~~ +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: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 +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: +/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 @@ -159864,6 +159900,19 @@ 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 +[ 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/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, @@ -159988,19 +160037,152 @@ /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/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/dox/index/finder.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/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/include/seqan/index.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 + | ^~~~~~~~~~~~~~~ +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, @@ -160269,6 +160451,15 @@ /usr/include/c++/14/bits/stl_function.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: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 @@ -160276,176 +160467,306 @@ /usr/include/c++/14/bits/stl_function.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/index/find_repeats.cpp:5: -/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 - | ^~~~~~~~~~~~~~ +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, - 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/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 | ^~~~~~~~~~~~~~~ -In file included from /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/dox/index/finder.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/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/include/seqan/index.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 - | ^~~~~~~~~~~~~~ +/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/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::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/dox/index/find_repeats.cpp:5: +/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/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::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/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::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 | ^~~~~~~~~~~~~~ -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 - | ^~~~~~~~~~~~~~~ +/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/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/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 | ^~~~~~~~~~~~~~ -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 - | ^~~~~~~~~~~~~~ +/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/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::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/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::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 | ^~~~~~~~~~~~~~ -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/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/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::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 | ^~~~~~~~~~~~~~ -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, - | ^~~~~~~~~~~~~~~ +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, + 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/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/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | 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/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/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/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::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/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: +/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 > >; TSource = Index > >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index > >; TValue2 = Index > >]' + 645 | assign(_dataValue(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 = Index > >]' + 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 = Index > >; typename Reference > >::Type = Index > >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index > >&]' + 115 | return value(me.index); + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder > > >; typename Parameter_::Type>::Type = Index > >&; typename Haystack::Type = Index > >]' + 904 | return container(obj); + | ~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' + 59 | Index &index = haystack(finder); + | ~~~~~~~~^~~~~~~~ +/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 = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' + 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:14:16: required from here + 14 | while (find(finder, "to")) + | ~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index > >& seqan::Index > >::operator=(const seqan::Index > >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +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: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/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: @@ -160687,291 +161008,6 @@ /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 - | ^~~~~~~~~~~~~~ -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/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: -/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 > >; TSource = Index > >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index > >; TValue2 = Index > >]' - 645 | assign(_dataValue(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 = Index > >]' - 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 = Index > >; typename Reference > >::Type = Index > >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index > >&]' - 115 | return value(me.index); - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder > > >; typename Parameter_::Type>::Type = Index > >&; typename Haystack::Type = Index > >]' - 904 | return container(obj); - | ~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' - 59 | Index &index = haystack(finder); - | ~~~~~~~~^~~~~~~~ -/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 = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' - 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:14:16: required from here - 14 | while (find(finder, "to")) - | ~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index > >& seqan::Index > >::operator=(const seqan::Index > >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -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: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): - | ^~~~~ [ 36%] Linking CXX executable ../bin/demo_dox_index_finder 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_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 -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_finder.dir/link.d CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -o ../bin/demo_dox_index_finder -lrt -lz -lbz2 @@ -161131,13 +161167,6 @@ /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/demos/dox/index/find_repeats.cpp:3: -/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/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -161466,19 +161495,13 @@ /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): | ^~~~~~~~~ -[ 36%] Linking CXX executable ../bin/demo_dox_index_find_repeats -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_find_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 -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_find_repeats.dir/link.d CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -o ../bin/demo_dox_index_find_repeats -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_find_repeats -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_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_index_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_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.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_iterator.dir/dox/index/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_index_iterator.dir/dox/index/iterator.cpp.o -MF CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d -o CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.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/demos/dox/index/find_repeats.cpp:3: +/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/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(); @@ -161520,6 +161543,8 @@ /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) | ^~~~~~ +[ 36%] Linking CXX executable ../bin/demo_dox_index_find_repeats +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_find_repeats.dir/link.txt --verbose=1 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 > > >]' @@ -161844,6 +161869,17 @@ /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 -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_find_repeats.dir/link.d CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -o ../bin/demo_dox_index_find_repeats -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_find_repeats +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_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_index_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_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.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_iterator.dir/dox/index/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_index_iterator.dir/dox/index/iterator.cpp.o -MF CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d -o CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp /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_); @@ -163958,6 +163994,8 @@ /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) | ^~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre +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_getOccurrences_getFrequency_range_getFibre.dir/link.txt --verbose=1 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 > > >]' @@ -164282,6 +164320,8 @@ /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 -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_getOccurrences_getFrequency_range_getFibre.dir/link.d CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o -o ../bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre -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::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_); @@ -164446,6 +164486,10 @@ /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) | ^~~~~~ +[ 37%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre +make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" /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(); @@ -164487,6 +164531,11 @@ /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) | ^~~~~~ +make[4]: 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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_maxrepeats.dir/dox/index/maxrepeats.cpp.o -MF CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o.d -o CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/maxrepeats.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::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_); @@ -164851,19 +164900,6 @@ /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) | ^~~~~~ -[ 37%] Linking CXX executable ../bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre -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_getOccurrences_getFrequency_range_getFibre.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_getOccurrences_getFrequency_range_getFibre.dir/link.d CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o -o ../bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre -make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make[4]: 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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_maxrepeats.dir/dox/index/maxrepeats.cpp.o -MF CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o.d -o CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/maxrepeats.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, @@ -169051,6 +169087,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_mummy +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_mummy.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 @@ -169115,8 +169153,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 37%] Linking CXX executable ../bin/demo_dox_index_mummy -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_mummy.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_mummy.dir/link.d CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o -o ../bin/demo_dox_index_mummy -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 37%] Built target demo_dox_index_mummy @@ -169524,6 +169560,235 @@ /usr/include/c++/14/bits/stl_function.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 + | ^~~~~~~~~~~~~~ /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(); @@ -169561,6 +169826,20 @@ /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: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/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 > > >]' @@ -170149,6 +170428,13 @@ /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: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/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_); @@ -170431,256 +170717,6 @@ /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/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 - | ^~~~~~~~~~~~~~~ [ 38%] Linking CXX executable ../bin/demo_dox_index_shape_hash_init 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_shape_hash_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_shape_hash_init.dir/link.d CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -o ../bin/demo_dox_index_shape_hash_init -lrt -lz -lbz2 @@ -171998,11 +172034,11 @@ /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_textAt_indexText_saAt_indexRequire -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_textAt_indexText_saAt_indexRequire.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_textAt_indexText_saAt_indexRequire.dir/link.d CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/dox/index/textAt_indexText_saAt_indexRequire.cpp.o -o ../bin/demo_dox_index_textAt_indexText_saAt_indexRequire -lrt -lz -lbz2 +[ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' -[ 38%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire +[ 38%] Built target demo_dox_index_open_save make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_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_dox_misc_enumerate_strings.dir/DependInfo.cmake "--color=" @@ -172011,6 +172047,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 38%] Building CXX object demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_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_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o -MF CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o.d -o CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp +[ 38%] Linking CXX executable ../bin/demo_dox_index_textAt_indexText_saAt_indexRequire +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_textAt_indexText_saAt_indexRequire.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_textAt_indexText_saAt_indexRequire.dir/link.d CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/dox/index/textAt_indexText_saAt_indexRequire.cpp.o -o ../bin/demo_dox_index_textAt_indexText_saAt_indexRequire -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_textAt_indexText_saAt_indexRequire +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=" +make[4]: 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/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 38%] Building CXX object demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_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_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -MF CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o.d -o CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/get_terminal_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, @@ -172102,37 +172151,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 -[ 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_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=" -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' +[ 38%] Linking CXX executable ../bin/demo_dox_misc_get_terminal_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_dox_misc_get_terminal_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_dox_misc_get_terminal_size.dir/link.d CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -o ../bin/demo_dox_misc_get_terminal_size -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 -make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build +[ 38%] Built target demo_dox_misc_get_terminal_size make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 38%] Building CXX object demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_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_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -MF CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o.d -o CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/get_terminal_size.cpp make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.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_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_get_terminal_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_dox_misc_get_terminal_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_dox_misc_get_terminal_size.dir/link.d CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o -o ../bin/demo_dox_misc_get_terminal_size -lrt -lz -lbz2 +[ 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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_misc_get_terminal_size +[ 39%] Built target demo_dox_misc_enumerate_strings 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=" @@ -173017,6 +173053,19 @@ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 In file included from /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, @@ -173089,8 +173138,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 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 @@ -173098,8 +173145,6 @@ /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' 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 @@ -173107,10 +173152,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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/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 @@ -173130,9 +173171,6 @@ /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_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' 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 @@ -173146,7 +173184,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o 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, @@ -173166,7 +173203,6 @@ /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/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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 /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 { | ^~~~~~~~~~~~~~ @@ -173179,19 +173215,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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/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, @@ -173286,6 +173309,19 @@ /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, @@ -173730,24 +173766,24 @@ /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=" +[ 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 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_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.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_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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=" @@ -173761,7 +173797,7 @@ 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/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp:2: + 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 | ^~~~~~~~~~~~~~ @@ -173771,7 +173807,7 @@ 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/dox/seeds/seeds_chaining.cpp:1: + 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 | ^~~~~~~~~~~~~~ @@ -173911,7 +173947,7 @@ 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/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.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 | ^~~~~~~~~~~~~~ @@ -173921,7 +173957,7 @@ 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/dox/seeds/seeds_extension.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -174322,6 +174358,20 @@ /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/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: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 @@ -174348,20 +174398,6 @@ /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 > @@ -174584,24 +174620,24 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 41%] Linking CXX executable ../bin/demo_dox_seeds_seeds_chaining -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_chaining.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_chaining.dir/link.d CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -o ../bin/demo_dox_seeds_seeds_chaining -lrt -lz -lbz2 +[ 40%] 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_chaining +[ 40%] Built target demo_dox_seeds_seeds_extension 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=" 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 +[ 40%] 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 +[ 41%] Linking CXX executable ../bin/demo_dox_seeds_seeds_chaining +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_chaining.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_chaining.dir/link.d CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -o ../bin/demo_dox_seeds_seeds_chaining -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 +[ 41%] Built target demo_dox_seeds_seeds_chaining make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -174698,6 +174734,20 @@ /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/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/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, @@ -174792,20 +174842,6 @@ /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: -/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 - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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, @@ -174825,10 +174861,6 @@ /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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' 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 @@ -174842,15 +174874,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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: @@ -174897,6 +174920,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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/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 > >]' @@ -174948,6 +174973,15 @@ /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_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' 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]' @@ -174974,6 +175008,8 @@ /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) | ^~~~~~~~ +[ 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, @@ -175081,6 +175117,10 @@ 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_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o -MF CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o.d -o CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/UNUSED_suffix.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, @@ -175175,10 +175215,6 @@ /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); - | ^ [ 41%] Linking CXX executable ../bin/demo_dox_seq_io_fai_index_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_seq_io_fai_index_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_seq_io_fai_index_example.dir/link.d CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o -o ../bin/demo_dox_seq_io_fai_index_example -lrt -lz -lbz2 @@ -175651,7 +175687,9 @@ 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%] Linking CXX executable ../bin/demo_dox_sequence_string2 [ 43%] Built target 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_string2.dir/link.txt --verbose=1 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=" @@ -175660,8 +175698,6 @@ 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_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_string2 @@ -175916,6 +175952,19 @@ /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: @@ -176159,17 +176208,6 @@ /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_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' 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 @@ -176177,8 +176215,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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: @@ -176248,6 +176284,155 @@ /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/dox/statistics/load_markov_model.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/dox/statistics/load_markov_model.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/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: @@ -176443,155 +176628,6 @@ /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/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/dox/statistics/load_markov_model.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/dox/statistics/load_markov_model.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/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: @@ -177020,13 +177056,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object demos/CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_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_store_store_example.dir/dox/store/store_example.cpp.o -MF CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_example.cpp.o.d -o CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/store/store_example.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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -177122,6 +177151,13 @@ /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/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] @@ -177202,19 +177238,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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 -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.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_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o -MF CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o.d -o CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.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]' @@ -177699,6 +177722,19 @@ /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 +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.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_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o -MF CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o.d -o CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.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, @@ -177822,6 +177858,27 @@ /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 file included from /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/howto/align_gaps_clipping.cpp:6: @@ -177944,27 +178001,6 @@ /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; - | ^~~~~~ [ 44%] Linking CXX executable ../bin/demo_howto_align_gaps_clipping 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 @@ -178430,36 +178466,6 @@ /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 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; - | ^~~~~~ /build/reproducible-path/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())) @@ -178536,6 +178542,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, + 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; + | ^~~~~~ /build/reproducible-path/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:120:35: recursively 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)); @@ -178630,6 +178666,13 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ [ 44%] Linking CXX executable ../bin/demo_dox_store_store_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_store_store_example.dir/link.txt --verbose=1 +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); + | ^ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_store_store_example.dir/link.d CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_example.cpp.o -o ../bin/demo_dox_store_store_example -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_store_store_example @@ -178641,13 +178684,6 @@ 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); - | ^ [ 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 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, @@ -178740,10 +178776,6 @@ | ^~~~~~~~~~~~~~~ /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 -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 -make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 @@ -178751,6 +178783,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 44%] Built target demo_howto_custom_file_endings +make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: 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 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -178841,6 +178877,32 @@ /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/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /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, @@ -178925,39 +178987,6 @@ /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/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/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_ = 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())) @@ -179005,6 +179034,13 @@ /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())) @@ -179992,8 +180028,6 @@ 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_load_score.dir/howto/scores/load_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_load_score.dir/howto/scores/load_score.cpp.o -MF CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o.d -o CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp -[ 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 In file included from /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, @@ -180078,6 +180112,15 @@ /usr/include/c++/14/bits/stl_function.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 + | ^~~~~~~~~~~~~~ +[ 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 @@ -180089,13 +180132,13 @@ 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/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_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/howto/scores/load_score.cpp:26: +/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, @@ -180183,26 +180226,6 @@ /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/demos/howto/scores/load_score.cpp:26: -/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); - | ^ -[ 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_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/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, @@ -180219,6 +180242,19 @@ /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_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_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_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 @@ -180326,53 +180362,6 @@ /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, - 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 = 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/tabix_io/tabix_vcf.cpp:18:14: required from here - 18 | if (!open(vcfFile, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~ -/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/tabix_io/tabix_vcf.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/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 = 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/tabix_io/tabix_vcf.cpp:18:14: required from here - 18 | if (!open(vcfFile, 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/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/base.cpp:2: @@ -180463,6 +180452,53 @@ /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 = 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/tabix_io/tabix_vcf.cpp:18:14: required from here + 18 | if (!open(vcfFile, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~ +/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/tabix_io/tabix_vcf.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/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 = 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/tabix_io/tabix_vcf.cpp:18:14: required from here + 18 | if (!open(vcfFile, 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/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, @@ -180493,27 +180529,6 @@ /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 = 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; - | ^~~~~~ 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]' @@ -180556,6 +180571,27 @@ /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 @@ -180569,19 +180605,6 @@ 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 -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 -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=" -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_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.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_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.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.cpp:3: @@ -180677,6 +180700,19 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_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=" +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_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.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_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.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 +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 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=" @@ -180777,30 +180813,6 @@ | ^~~~~~~~~~~~~~ [ 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 -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_basic_code_detailed -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.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_tags.dir/tutorial/a_first_example/example_tags.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_tags.dir/tutorial/a_first_example/example_tags.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tags.cpp -[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_example_tags -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.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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.dir/link.d CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o -o ../bin/demo_tutorial_a_first_example_example_tags -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_tags -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.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_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tags_for_print.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/code_encapsulation.cpp:3: @@ -180884,6 +180896,8 @@ /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_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 +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 @@ -180891,6 +180905,28 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 46%] Built target demo_tutorial_a_first_example_basic_code_detailed +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.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_tags.dir/tutorial/a_first_example/example_tags.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_tags.dir/tutorial/a_first_example/example_tags.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tags.cpp +[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_example_tags +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.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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.dir/link.d CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o -o ../bin/demo_tutorial_a_first_example_example_tags -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_tags +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.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_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tags_for_print.cpp [ 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 @@ -181202,24 +181238,24 @@ /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_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_a_first_example_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_a_first_example_solution_1.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_final_result +[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_final_result 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_final_result.dir/link.txt --verbose=1 -[ 47%] Built target demo_tutorial_a_first_example_solution_1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_final_result.dir/link.d CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -o ../bin/demo_tutorial_a_first_example_final_result -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_final_result 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build 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_2.dir/tutorial/a_first_example/solution_2.cpp.o +[ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_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_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.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_a_first_example_final_result.dir/link.d CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -o ../bin/demo_tutorial_a_first_example_final_result -lrt -lz -lbz2 +[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_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_a_first_example_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_a_first_example_solution_1.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_1 -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_final_result +[ 47%] Built target demo_tutorial_a_first_example_solution_1 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -181408,11 +181444,11 @@ /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 +[ 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 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=" @@ -181421,11 +181457,11 @@ 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=" @@ -181968,6 +182004,20 @@ /usr/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: @@ -182062,20 +182112,6 @@ /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/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/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] @@ -182104,11 +182140,13 @@ /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 +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 [ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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=" @@ -182117,11 +182155,9 @@ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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=" @@ -182132,7 +182168,7 @@ 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_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_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/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.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 | ^~~~~~~~~~~~~~ @@ -182142,7 +182178,7 @@ 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/alignment/graph.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -182224,24 +182260,9 @@ /usr/include/c++/14/bits/stl_function.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/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/graph_assignment1.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.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 | ^~~~~~~~~~~~~~ @@ -182251,7 +182272,7 @@ 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/alignment/graph_assignment1.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -182303,19 +182324,6 @@ /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 - | ^~~~~~~~~~~~~~~ /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 | ^~~~~~~~~~~~~~ @@ -182374,11 +182382,39 @@ /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_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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +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 + | ^~~~~~~~~~~~~~~ +[ 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 +[ 48%] Built target demo_tutorial_alignment_graph_assignment1 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=" @@ -182387,11 +182423,11 @@ 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_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 +[ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment1 +[ 48%] Built target demo_tutorial_alignment_graph 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=" @@ -182483,32 +182519,6 @@ /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/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/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/scoring_scheme_matrix.cpp:3: @@ -182592,19 +182602,6 @@ /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, @@ -182616,6 +182613,32 @@ /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/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/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] @@ -182624,6 +182647,19 @@ /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: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> @@ -182844,11 +182880,13 @@ 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 [ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_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=" @@ -182857,11 +182895,9 @@ 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_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_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=" @@ -182870,24 +182906,24 @@ 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_basic_techniques_base.dir/tutorial/basic_techniques/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_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o -MF CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o.d -o CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp -[ 50%] Linking CXX executable ../bin/demo_tutorial_background_and_motivation_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_tutorial_background_and_motivation_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_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 +[ 49%] Linking CXX executable ../bin/demo_tutorial_basic_techniques_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_basic_techniques_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_basic_techniques_base.dir/link.d CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o -o ../bin/demo_tutorial_basic_techniques_base -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 +[ 49%] 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 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 +[ 49%] 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 -[ 50%] Linking CXX executable ../bin/demo_tutorial_basic_techniques_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_basic_techniques_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_basic_techniques_base.dir/link.d CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o -o ../bin/demo_tutorial_basic_techniques_base -lrt -lz -lbz2 +[ 50%] Linking CXX executable ../bin/demo_tutorial_background_and_motivation_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_tutorial_background_and_motivation_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_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_basic_techniques_base +[ 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=" @@ -183287,29 +183323,6 @@ /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 = 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /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 | ^~~~~~~~~~~~~~ @@ -183353,6 +183366,36 @@ /usr/include/c++/14/bits/stl_function.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/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]' @@ -183376,13 +183419,6 @@ /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/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: /build/reproducible-path/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]' @@ -183439,30 +183475,30 @@ | ^ [ 51%] Linking CXX executable ../bin/demo_tutorial_bed_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_bed_io_example1.dir/link.txt --verbose=1 -[ 51%] Linking CXX executable ../bin/demo_tutorial_bed_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_bed_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_bed_io_solution1.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o -o ../bin/demo_tutorial_bed_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_tutorial_bed_io_example1.dir/link.d CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o -o ../bin/demo_tutorial_bed_io_example1 -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' [ 51%] Built target demo_tutorial_bed_io_example1 -[ 51%] Built target demo_tutorial_bed_io_solution1 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.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_bed_io_solution3.dir/DependInfo.cmake "--color=" +[ 51%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_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_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp +[ 51%] Linking CXX executable ../bin/demo_tutorial_bed_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_bed_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_bed_io_solution1.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o -o ../bin/demo_tutorial_bed_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 51%] Built target demo_tutorial_bed_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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_bed_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_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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' [ 51%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o -[ 51%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_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_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_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_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_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, @@ -183544,6 +183580,66 @@ /usr/include/c++/14/bits/stl_function.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: +/build/reproducible-path/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, @@ -183632,13 +183728,6 @@ /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/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 @@ -183646,59 +183735,6 @@ /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/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) - | ^~~~~~~~ /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); @@ -184648,6 +184684,19 @@ /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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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/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 @@ -184655,11 +184704,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 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]' @@ -184683,14 +184727,6 @@ /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_) | ^~~~~~~~ -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/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 > >]' @@ -185356,6 +185392,90 @@ /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/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 + | ^~~~~~~~~~~~~~~ /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_]' 1366 | AppendValueToString_ >::appendValue_(me, std::forward(_value)); @@ -185460,6 +185580,17 @@ /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/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 = 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_)), @@ -185957,6 +186088,21 @@ /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 + | ^~~~~~~~~~~~~~ /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_); @@ -186000,6 +186146,19 @@ /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/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/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_); @@ -186049,6 +186208,14 @@ /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 = 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 + | ^~~~~~~~~~~~~~ /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; @@ -186166,137 +186333,6 @@ /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/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 - | ^~~~~~~~~~~~~~ -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 @@ -188370,501 +188406,12 @@ /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) | ^~~~~~~~ -[ 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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.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 - | ^~~~~~~~~~~~~~ -/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, - 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 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/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_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 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] @@ -188886,23 +188433,21 @@ /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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_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 +[ 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_solution2.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=" 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 -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_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 +[ 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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.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 | ^~~~~~~~~~~~~~ @@ -189352,19 +188897,19 @@ /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_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 +[ 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_solution1 -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend +[ 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_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_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_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build +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_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 +[ 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 /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); @@ -189393,7 +188938,7 @@ 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/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp:1: + 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 | ^~~~~~~~~~~~~~ @@ -189843,19 +189388,10 @@ /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 +/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] @@ -189877,10 +189413,23 @@ /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_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/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: + 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/solution3.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 | ^~~~~~~~~~~~~~ @@ -189890,7 +189439,10 @@ 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: + 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 | ^~~~~~~~~~~~~~ @@ -189961,97 +189513,6 @@ /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/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, @@ -190279,6 +189740,13 @@ /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 + | ^~~~~~~~~~~~~~ +/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] @@ -190303,27 +189771,344 @@ /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 > >]' - 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/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) + | ^~~~~~~~ +[ 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/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/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: +/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]' @@ -190675,12 +190460,290 @@ /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; + | ^~~~~~ /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/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); + | ^ [ 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/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; + | ^~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 @@ -190692,12 +190755,6 @@ 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/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, @@ -190793,27 +190850,6 @@ /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: /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] @@ -191266,33 +191302,6 @@ /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/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, @@ -191550,10 +191559,37 @@ /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); + | ^ [ 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 +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; + | ^~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 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/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%] Built target demo_tutorial_fragment_store_access_aligned_reads make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -191676,6 +191712,148 @@ /usr/include/c++/14/bits/stl_function.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, @@ -191903,64 +192081,6 @@ /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/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 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, @@ -191991,95 +192111,11 @@ /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< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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) - | ^~~~~~~~ -[ 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 +[ 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_access_aligned_reads2 +[ 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=" @@ -192088,32 +192124,6 @@ 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_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_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 -[ 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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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/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, @@ -192209,19 +192219,6 @@ /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_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/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] @@ -192302,6 +192299,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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/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]' @@ -192590,90 +192600,6 @@ /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/genome_annotations/assignment_1_hint.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_hint.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 - | ^~~~~~~~~~~~~~~ /build/reproducible-path/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)); @@ -192787,13 +192713,6 @@ /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/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>&]': @@ -192877,6 +192796,123 @@ /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) | ^~~~~~~~ +[ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.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_hint.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, @@ -192895,6 +192931,12 @@ /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/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 @@ -192960,6 +193002,27 @@ /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/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 > >]' @@ -193084,23 +193147,6 @@ /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/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; - | ^~~~~~ 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: @@ -193126,16 +193172,6 @@ /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, @@ -193174,6 +193210,233 @@ 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 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/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, @@ -193265,6 +193528,36 @@ /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/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, @@ -193472,263 +193765,19 @@ /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 = 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; - | ^~~~~~ +[ 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: @@ -193772,39 +193821,6 @@ /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: -/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); - | ^ -[ 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 -[ 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/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, @@ -193896,90 +193912,13 @@ /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/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_3_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_3_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/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, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -193998,13 +193937,6 @@ /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/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 @@ -194070,37 +194002,19 @@ /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/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_3_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 - | ^~~~~~~~~~~~~~~ +[ 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 > >]' @@ -194174,14 +194088,6 @@ /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/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_ = 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())) @@ -194233,6 +194139,161 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_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_3_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_3_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/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 @@ -194277,6 +194338,24 @@ /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 > >]' @@ -194401,6 +194480,26 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, + 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); + | ^ +[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_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_genome_annotations_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_genome_annotations_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_2_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_2_solution +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_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_4_solution.dir/tutorial/genome_annotations/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_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_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: @@ -194426,49 +194525,6 @@ /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: -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 /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 /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, @@ -194487,46 +194543,6 @@ /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: -/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/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); - | ^ -[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_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_genome_annotations_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_genome_annotations_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_2_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_2_solution -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_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_4_solution.dir/tutorial/genome_annotations/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_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp -[ 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 -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_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_genome_annotations_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_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.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_base.dir/tutorial/genome_annotations/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_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/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, @@ -194618,6 +194634,233 @@ /usr/include/c++/14/bits/stl_function.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, + 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_4_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 + | ^~~~~~~~~~~~~~~ +[ 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/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_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 +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_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_genome_annotations_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_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.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_base.dir/tutorial/genome_annotations/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_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.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 > >]' + 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/genome_annotations/assignment_4_solution.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_ = 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 = 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/genome_annotations/assignment_4_solution.cpp:11:39: required from here + 11 | 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_ = 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 = 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/genome_annotations/assignment_4_solution.cpp:11:39: required from here + 11 | 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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +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, @@ -194717,37 +194960,6 @@ 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/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_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/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> @@ -194762,14 +194974,6 @@ /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/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 @@ -194835,50 +195039,6 @@ /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/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 @@ -194930,130 +195090,6 @@ 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/demos/tutorial/genome_annotations/assignment_4_solution.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_ = 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 = 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/genome_annotations/assignment_4_solution.cpp:11:39: required from here - 11 | 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_ = 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 = 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/genome_annotations/assignment_4_solution.cpp:11:39: required from here - 11 | 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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -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 > >]' - 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) @@ -195203,6 +195239,13 @@ /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: +/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] @@ -195214,13 +195257,19 @@ /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/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); - | ^ +[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_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_genome_annotations_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_genome_annotations_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_4_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_4_solution +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.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_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 /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, @@ -195239,23 +195288,6 @@ /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_genome_annotations_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_genome_annotations_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_genome_annotations_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_4_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_4_solution -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.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_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 -/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, @@ -195354,28 +195386,19 @@ 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 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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%] 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 [ 55%] Built target demo_tutorial_gff_and_gtf_io_base 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 -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' 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_genome_annotations_base -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" [ 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 -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_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.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_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 +/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, @@ -195463,6 +195486,104 @@ /usr/include/c++/14/bits/stl_function.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/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_]': +/build/reproducible-path/seqan2-2.4.0+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/tutorial/gff_and_gtf_io/example1.cpp:12:36: required from here + 12 | GffFileIn gffIn(toCString(file)); + | ^ +/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_ = 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/tutorial/gff_and_gtf_io/example1.cpp:12:36: required from here + 12 | GffFileIn gffIn(toCString(file)); + | ^ +/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_ = TagGff_]' + 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]' + 722 | if (!guessFormatFromFilename(basename, 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/gff_and_gtf_io/example1.cpp:12:36: required from here + 12 | GffFileIn gffIn(toCString(file)); + | ^ +/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) + | ^~~~~~~~ +[ 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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Built target demo_tutorial_genome_annotations_base +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.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_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/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, @@ -195557,65 +195678,6 @@ /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/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_]': -/build/reproducible-path/seqan2-2.4.0+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/tutorial/gff_and_gtf_io/example1.cpp:12:36: required from here - 12 | GffFileIn gffIn(toCString(file)); - | ^ -/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_ = 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/tutorial/gff_and_gtf_io/example1.cpp:12:36: required from here - 12 | GffFileIn gffIn(toCString(file)); - | ^ -/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/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_]': @@ -195643,32 +195705,6 @@ /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 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_ = TagGff_]' - 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]' - 722 | if (!guessFormatFromFilename(basename, 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/gff_and_gtf_io/example1.cpp:12:36: required from here - 12 | GffFileIn gffIn(toCString(file)); - | ^ -/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_ = 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())) @@ -195731,6 +195767,10 @@ /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); + | ^ 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] @@ -195742,14 +195782,6 @@ /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); - | ^ -/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); - | ^ [ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_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_gff_and_gtf_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_gff_and_gtf_io_example1.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_example1 -lrt -lz -lbz2 @@ -195763,19 +195795,10 @@ 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_solution1.dir/tutorial/gff_and_gtf_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_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp -[ 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 -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.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_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, @@ -195870,6 +195893,97 @@ /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/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_]': +/build/reproducible-path/seqan2-2.4.0+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/gff_and_gtf_io/solution1.cpp:12:14: required from here + 12 | if (!open(gffIn, toCString(file))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/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_ = 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/gff_and_gtf_io/solution1.cpp:12:14: required from here + 12 | if (!open(gffIn, toCString(file))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/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_ = TagGff_]' + 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/demos/tutorial/gff_and_gtf_io/solution1.cpp:12:14: required from here + 12 | if (!open(gffIn, toCString(file))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/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) + | ^~~~~~~~ +[ 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 +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.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_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 In file included from /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, @@ -195976,84 +196090,6 @@ /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/gff_and_gtf_io/solution1.cpp:12:14: required from here - 12 | if (!open(gffIn, toCString(file))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/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_ = 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/gff_and_gtf_io/solution1.cpp:12:14: required from here - 12 | if (!open(gffIn, toCString(file))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/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_ = TagGff_]' - 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/demos/tutorial/gff_and_gtf_io/solution1.cpp:12:14: required from here - 12 | if (!open(gffIn, toCString(file))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/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/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_]': -/build/reproducible-path/seqan2-2.4.0+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/gff_and_gtf_io/solution2.cpp:13:14: required from here 13 | if (!open(gffIn, toCString(file))) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ @@ -196131,6 +196167,10 @@ /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); + | ^ 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, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: @@ -196156,19 +196196,11 @@ /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); - | ^ -/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); - | ^ -[ 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_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_solution2 +[ 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=" @@ -196177,19 +196209,10 @@ 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_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 -[ 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_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=" -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_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.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_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 +/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, @@ -196284,6 +196307,19 @@ /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_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_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=" +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_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.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_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 In file included from /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, @@ -196391,24 +196427,24 @@ /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_graph_algo_scc -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_algo_scc.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_algo_scc.dir/link.d CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o -o ../bin/demo_tutorial_graph_graph_algo_scc -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' -[ 56%] Built target demo_tutorial_graph_graph_algo_scc +[ 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' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o +[ 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 -[ 56%] 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 +[ 56%] Linking CXX executable ../bin/demo_tutorial_graph_graph_algo_scc +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_algo_scc.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_algo_scc.dir/link.d CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o -o ../bin/demo_tutorial_graph_graph_algo_scc -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_gff_and_gtf_io_solution3 +[ 56%] Built target demo_tutorial_graph_graph_algo_scc make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -199951,8 +199987,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 56%] Linking CXX executable ../bin/demo_tutorial_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 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 @@ -200099,17 +200133,6 @@ /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_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/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, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': @@ -200830,6 +200853,19 @@ /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, @@ -201867,6 +201903,19 @@ 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_search.dir/tutorial/index_iterators/index_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_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp +[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_bidirectional_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_index_iterators_index_bidirectional_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_index_iterators_index_bidirectional_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_bidirectional_search -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_index_iterators_index_bidirectional_search +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.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_search2.dir/tutorial/index_iterators/index_search2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_search2.dir/tutorial/index_iterators/index_search2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.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, @@ -202016,19 +202065,155 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_bidirectional_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_index_iterators_index_bidirectional_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_index_iterators_index_bidirectional_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_bidirectional_search -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Built target demo_tutorial_index_iterators_index_bidirectional_search -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.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_search2.dir/tutorial/index_iterators/index_search2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_search2.dir/tutorial/index_iterators/index_search2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.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/tutorial/index_iterators/index_search2.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_search2.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: @@ -202279,6 +202464,48 @@ /usr/include/c++/14/bits/stl_function.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: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<>]' @@ -202382,226 +202609,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -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/tutorial/index_iterators/index_search.cpp:30:39: required from here - 30 | std::cout << representative(it) << std::endl; - | ^ -/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, - 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_search2.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_search2.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 - | ^~~~~~~~~~~~~~~ -/usr/include/c++/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 > @@ -202651,6 +202658,35 @@ /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/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/tutorial/index_iterators/index_search.cpp:30:39: required from here + 30 | std::cout << representative(it) << std::endl; + | ^ +/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: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 > @@ -202810,19 +202846,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_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_index_iterators_index_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_index_iterators_index_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Built target demo_tutorial_index_iterators_index_search -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_iterator_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_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.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_iterator_assignment2.dir/tutorial/index_iterators/iterator_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_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.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<>]' @@ -202901,6 +202924,32 @@ /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): | ^~~~~~~~~ +[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_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_index_iterators_index_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_index_iterators_index_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_index_iterators_index_search +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_iterator_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_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.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_iterator_assignment2.dir/tutorial/index_iterators/iterator_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_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp +[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_search2 +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_search2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_search2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_index_iterators_index_search2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_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_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.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_iterator_solution1.dir/tutorial/index_iterators/iterator_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_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_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/pipe.h:41, @@ -203050,312 +203099,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_search2 -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_search2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_search2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Built target demo_tutorial_index_iterators_index_search2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_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_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.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_iterator_solution1.dir/tutorial/index_iterators/iterator_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_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.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 - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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 > >; 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/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; 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 > >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp:10:60: required from here - 10 | Iterator< TIndex, TopDown > >::Type it(index); - | ^ -/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/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; 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 > >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp:10:60: required from here - 10 | Iterator< TIndex, TopDown > >::Type it(index); - | ^ -/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/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, @@ -203748,10 +203491,22 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_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_iterator_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_iterator_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_assignment2 -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: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 @@ -203759,18 +203514,286 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Built target demo_tutorial_index_iterators_iterator_assignment2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_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_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.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_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_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_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.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 = StringSet > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' +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: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/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; 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 > >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp:10:60: required from here + 10 | Iterator< TIndex, TopDown > >::Type it(index); + | ^ +/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/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; 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 > >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp:10:60: required from here + 10 | Iterator< TIndex, TopDown > >::Type it(index); + | ^ +/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/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 > > >; 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 > > >; TSpec = seqan::Preorder]' @@ -203900,6 +203923,8 @@ /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) | ^~~~~~~~ +[ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_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_iterator_assignment2.dir/link.txt --verbose=1 /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(); @@ -204129,6 +204154,8 @@ /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 -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_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_assignment2 -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/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(); @@ -204170,6 +204197,13 @@ /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) | ^~~~~~ +[ 58%] Built target demo_tutorial_index_iterators_iterator_assignment2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_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_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.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/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_); @@ -204264,91 +204298,8 @@ /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) | ^~~~~~ -In file included from /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_solution2.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_solution2.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 - | ^~~~~~~~~~~~~~~ +[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_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_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp /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_); @@ -204554,13 +204505,6 @@ /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/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/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_); @@ -204643,63 +204587,6 @@ /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: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/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_); @@ -204982,6 +204869,155 @@ /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/iterator_solution2.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_solution2.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/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: @@ -206174,23 +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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Built target demo_tutorial_indexed_fasta_io_base -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_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_indexed_fasta_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_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.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_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_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_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_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, @@ -206290,6 +206309,10 @@ /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, @@ -206368,6 +206391,96 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 +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) + | ^~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_indexed_fasta_io_base +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_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_indexed_fasta_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_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.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_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_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_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_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, @@ -206467,83 +206580,6 @@ /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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/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, @@ -206576,6 +206612,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 59%] Linking CXX executable ../bin/demo_tutorial_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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_indexed_fasta_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_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_indices_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_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.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_assignment_1.dir/tutorial/indices/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_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.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: @@ -206699,19 +206748,6 @@ /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) | ^~~~~~~~ -[ 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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Built target demo_tutorial_indexed_fasta_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_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_indices_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_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.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_assignment_1.dir/tutorial/indices/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_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_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/include/seqan/pipe.h:41, @@ -206874,8 +206910,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 59%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_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_indexed_fasta_io_solution2.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 @@ -206939,8 +206973,6 @@ /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_indexed_fasta_io_solution2.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_solution2 -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/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -206953,15 +206985,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 59%] Built target demo_tutorial_indexed_fasta_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_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_indices_assignment_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_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.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_assignment_2.dir/tutorial/indices/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_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_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 > @@ -207123,9 +207146,22 @@ | ^~~~~~~~~~~~~~~ [ 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 +[ 59%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_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_indexed_fasta_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_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_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_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_indices_assignment_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_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.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_assignment_2.dir/tutorial/indices/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_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.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_indexed_fasta_io_solution2.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_solution2 -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_indexed_fasta_io_solution2 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=" @@ -207280,6 +207316,152 @@ /usr/include/c++/14/bits/stl_function.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/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: @@ -207296,6 +207478,15 @@ /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: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 @@ -207310,6 +207501,13 @@ /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_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 646 | struct FunctorGlobalize : public std::unary_function | ^~~~~~~~~~~~~~ @@ -207371,6 +207569,32 @@ /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/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: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 > @@ -207496,263 +207720,6 @@ /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/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, - 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/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: -/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<> >, IndexEsa<> >; TSource = Index, Alloc<> >, IndexEsa<> >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, IndexEsa<> >; TValue2 = Index, Alloc<> >, IndexEsa<> >]' - 645 | assign(_dataValue(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 = Index, Alloc<> >, IndexEsa<> >]' - 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 = Index, Alloc<> >, IndexEsa<> >; typename Reference > >::Type = Index, Alloc<> >, IndexEsa<> >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index, Alloc<> >, IndexEsa<> >&]' - 115 | return value(me.index); - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder, Alloc<> >, IndexEsa<> > >; typename Parameter_::Type>::Type = Index, Alloc<> >, IndexEsa<> >&; typename Haystack::Type = Index, Alloc<> >, IndexEsa<> >]' - 904 | return container(obj); - | ~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [6]; FinderMlr = const Tag]' - 59 | Index &index = haystack(finder); - | ~~~~~~~~^~~~~~~~ -/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 = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [6]]' - 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp:12:16: required from here - 12 | while (find(esaFinder, "TATAA")) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -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: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/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 > @@ -207790,6 +207757,19 @@ /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/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_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -207802,6 +207782,20 @@ /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/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: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 > @@ -207961,19 +207955,48 @@ /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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.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: +/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<> >, IndexEsa<> >; TSource = Index, Alloc<> >, IndexEsa<> >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, IndexEsa<> >; TValue2 = Index, Alloc<> >, IndexEsa<> >]' + 645 | assign(_dataValue(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 = Index, Alloc<> >, IndexEsa<> >]' + 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 = Index, Alloc<> >, IndexEsa<> >; typename Reference > >::Type = Index, Alloc<> >, IndexEsa<> >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index, Alloc<> >, IndexEsa<> >&]' + 115 | return value(me.index); + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder, Alloc<> >, IndexEsa<> > >; typename Parameter_::Type>::Type = Index, Alloc<> >, IndexEsa<> >&; typename Haystack::Type = Index, Alloc<> >, IndexEsa<> >]' + 904 | return container(obj); + | ~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [6]; FinderMlr = const Tag]' + 59 | Index &index = haystack(finder); + | ~~~~~~~~^~~~~~~~ +/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 = String, Alloc<> >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [6]]' + 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp:12:16: required from here + 12 | while (find(esaFinder, "TATAA")) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +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: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/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: @@ -208874,6 +208897,19 @@ /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) | ^~~~~~ +[ 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 In file included from /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, @@ -209954,6 +209990,96 @@ 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_fm_index.dir/tutorial/indices/fm_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_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o -MF CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o.d -o CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/fm_index.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.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_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_iterators_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_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.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.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 +In file included from /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/iterators/assignment_1.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/iterators/assignment_1.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: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, @@ -210036,6 +210162,20 @@ /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/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 @@ -210100,6 +210240,8 @@ /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 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: @@ -210116,6 +210258,12 @@ /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_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_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=" 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 @@ -210142,6 +210290,11 @@ /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_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/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 > @@ -210350,123 +210503,6 @@ /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_fm_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_indices_fm_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_indices_fm_index.dir/link.d CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o -o ../bin/demo_tutorial_indices_fm_index -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_fm_index -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_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_iterators_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_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.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.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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.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/iterators/assignment_1.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/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, @@ -210558,11 +210594,11 @@ /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 +[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_fm_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_indices_fm_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_indices_fm_index.dir/link.d CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o -o ../bin/demo_tutorial_indices_fm_index -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 +[ 60%] Built target demo_tutorial_indices_fm_index 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=" @@ -210974,11 +211010,13 @@ /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_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_iterators_assignment_4_workshop_solution.dir/link.txt --verbose=1 [ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_4_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 +[ 61%] Built target demo_tutorial_iterators_assignment_4_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=" @@ -210987,11 +211025,9 @@ 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_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_iterators_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_iterators_assignment_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_4_workshop_solution -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_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_4_workshop_solution +[ 61%] Built target demo_tutorial_iterators_assignment_3_workshop_solution make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_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_tutorial_iterators_sequence_iterator_demo.dir/DependInfo.cmake "--color=" @@ -211000,19 +211036,6 @@ 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_sequence_iterator_demo.dir/tutorial/iterators/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_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o -MF CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_iterators_base -make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_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_journaled_set_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_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_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_journaled_set_base.dir/tutorial/journaled_set/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_set_base.dir/tutorial/journaled_set/base.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/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, @@ -211104,11 +211127,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 61%] Linking CXX executable ../bin/demo_tutorial_journaled_set_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_journaled_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 -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_base.dir/link.d CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o -o ../bin/demo_tutorial_journaled_set_base -lrt -lz -lbz2 +[ 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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Built target demo_tutorial_iterators_base +make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_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_journaled_set_base.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_journaled_set_base +make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_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_journaled_set_base.dir/tutorial/journaled_set/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_set_base.dir/tutorial/journaled_set/base.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp +[ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_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_tutorial_iterators_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_tutorial_iterators_sequence_iterator_demo.dir/link.d CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o -o ../bin/demo_tutorial_iterators_sequence_iterator_demo -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_sequence_iterator_demo make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -211117,11 +211153,11 @@ 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_example_join.dir/tutorial/journaled_set/example_join.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example_join.dir/tutorial/journaled_set/example_join.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp -[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_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_tutorial_iterators_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_tutorial_iterators_sequence_iterator_demo.dir/link.d CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o -o ../bin/demo_tutorial_iterators_sequence_iterator_demo -lrt -lz -lbz2 +[ 62%] Linking CXX executable ../bin/demo_tutorial_journaled_set_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_journaled_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 -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_base.dir/link.d CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o -o ../bin/demo_tutorial_journaled_set_base -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_iterators_sequence_iterator_demo +[ 62%] Built target demo_tutorial_journaled_set_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/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -212430,23 +212466,23 @@ 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/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/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: + 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); | ^ -[ 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 +[ 62%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint +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_assignment1_hint.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment1_hint.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint -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 +[ 62%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -212455,11 +212491,11 @@ 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_assignment1_hint -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_assignment1_hint.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment1_hint.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint -lrt -lz -lbz2 +[ 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_assignment1_hint +[ 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=" @@ -212567,6 +212603,84 @@ /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, @@ -212666,162 +212780,6 @@ /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/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/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 > >]' @@ -212992,6 +212950,107 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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 = 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_assignment1.cpp:52:54: required from here + 52 | 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/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 > >]' @@ -213018,29 +213077,6 @@ /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_ = 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 = 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_assignment1.cpp:52:54: required from here - 52 | 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_ = 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())) @@ -213347,6 +213383,84 @@ /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, @@ -213432,176 +213546,6 @@ /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/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/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: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: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 > >]' @@ -213628,6 +213572,13 @@ /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_ = 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())) @@ -213650,6 +213601,13 @@ /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/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 + | ^~~~~~~~~~~~~~ /build/reproducible-path/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())) @@ -213853,6 +213811,84 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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 + | ^~~~~~~~~~~~~~ +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 > >]' @@ -214131,17 +214167,6 @@ 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_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 [ 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/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, @@ -214226,6 +214251,8 @@ /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_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' 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 @@ -214233,97 +214260,15 @@ /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/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 - | ^~~~~~~~~~~~~~ +[ 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, @@ -214364,25 +214309,6 @@ /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/journaled_set.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.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] - 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: @@ -214422,19 +214348,6 @@ /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< @@ -214442,60 +214355,97 @@ /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/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 - | ^~~~~~~~~~~~~~ +In file included from /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 | ^~~~~~~~~~~~~~ -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< - | ^~~~~~~~~~~~~~~ +/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: /build/reproducible-path/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 > >]' @@ -214801,6 +214751,25 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::JstTraversalNode, seqan::Alloc<> > > >::JstTraversalNode(seqan::JstTraversalNode, seqan::Alloc<> > > >&&)' 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/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/include/seqan/journaled_string_tree.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.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] + 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/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_)); @@ -214841,6 +214810,73 @@ /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/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/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/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 > >]' @@ -215208,19 +215244,6 @@ 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_assignment1_solution.dir/tutorial/metafunctions/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_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp -[ 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_journaled_string_tree_journaled_string_tree_base_assignment1 -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=" -make[4]: 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[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 In file included from /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, @@ -215312,6 +215335,19 @@ /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_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_journaled_string_tree_journaled_string_tree_base_assignment1 +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=" +make[4]: 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[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 @@ -215429,6 +215465,19 @@ /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 In file included from /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, @@ -215520,32 +215569,8 @@ /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, @@ -215630,6 +215655,13 @@ /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_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' 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 @@ -215637,12 +215669,29 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +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 /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 | ^~~~~~~~~~~~~~ +[ 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, @@ -215734,19 +215783,6 @@ /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 @@ -215859,6 +215895,17 @@ | ^~~~~~~~~~~~~~ [ 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 In file included from /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, @@ -215943,17 +215990,6 @@ /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_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 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 @@ -216403,19 +216439,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp -[ 65%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_consensus -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_multiple_sequence_alignment_consensus.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_multiple_sequence_alignment_consensus.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_consensus -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 65%] Built target demo_tutorial_multiple_sequence_alignment_consensus -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/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_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/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/tutorial/multiple_sequence_alignment/msa.cpp:3: @@ -216525,6 +216548,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 65%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_consensus +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_multiple_sequence_alignment_consensus.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 @@ -216546,6 +216571,17 @@ /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_multiple_sequence_alignment_consensus.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_consensus -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 65%] Built target demo_tutorial_multiple_sequence_alignment_consensus +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/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_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.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, Blosum62_> >]' 579 | convertAlignment(gAlign, align); @@ -216723,6 +216759,17 @@ /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; + | ^~~~~~ [ 65%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_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_tutorial_pairwise_sequence_alignment_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_tutorial_pairwise_sequence_alignment_alignment_banded.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded -lrt -lz -lbz2 @@ -216736,17 +216783,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_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_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.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 = 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/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_assignment1.cpp:3: @@ -217164,47 +217200,6 @@ /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: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: @@ -217299,6 +217294,47 @@ /usr/include/c++/14/bits/stl_function.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: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/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] @@ -217519,19 +217555,6 @@ 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_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp -[ 66%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -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_specialised.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_specialised.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -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_specialised -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.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_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_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/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp:3: @@ -217626,6 +217649,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 66%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +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_specialised.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] @@ -217634,6 +217659,8 @@ /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_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -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> @@ -217641,6 +217668,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 66%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.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_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.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 @@ -218136,17 +218172,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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' 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] @@ -218155,8 +218180,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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/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> @@ -218177,6 +218200,14 @@ /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_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=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:189: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/local_alignment_waterman_eggert_impl.h: In instantiation of 'TScoreValue seqan::_smithWaterman(Gaps&, Gaps&, LocalAlignmentFinder&, const Score&, TScoreValue) [with TSourceH = String, Alloc<> >; TGapsSpecH = Tag; TSourceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/local_alignment_enumeration_unbanded.h:105:30: required from 'bool seqan::nextLocalAlignment(Gaps&, Gaps&, LocalAlignmentEnumerator, Tag >&) [with TScoreValue = int; TScoreSpec = Tag; TSequenceH = String, Alloc<> >; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag]' @@ -218213,6 +218244,11 @@ /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_) : | ^~~~ +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 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/local_alignment_waterman_eggert_impl.h: In instantiation of 'TScoreValue seqan::_smithWatermanGetMatrix(LocalAlignmentFinder&, const TStringH&, const TStringV&, const Score&, TScoreValue) [with TScoreValue = int; TScoreSpec = Tag; TStringH = Segment, Alloc<> >, InfixSegment>; TStringV = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/local_alignment_waterman_eggert_impl.h:703:46: required from 'TScoreValue seqan::_smithWaterman(Gaps&, Gaps&, LocalAlignmentFinder&, const Score&, TScoreValue) [with TSourceH = String, Alloc<> >; TGapsSpecH = Tag; TSourceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]' 703 | TScoreValue ret = _smithWatermanGetMatrix(sw_finder, sourceSegment(gapsH), sourceSegment(gapsV), score_,cutoff); @@ -218709,13 +218745,13 @@ 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_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_pairwise_sequence_alignment_assignment5.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_pairwise_sequence_alignment_assignment5_step2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.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_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_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_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp +[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_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_pairwise_sequence_alignment_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_pairwise_sequence_alignment_assignment5.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5 -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 @@ -218810,6 +218846,45 @@ /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/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/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_step3.cpp:3: @@ -218904,32 +218979,6 @@ /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, - 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/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] @@ -218958,19 +219007,6 @@ /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 - | ^~~~~~~~~~~~~~~ [ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_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_pairwise_sequence_alignment_assignment5_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_pairwise_sequence_alignment_assignment5_step2.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2 -lrt -lz -lbz2 @@ -219296,10 +219332,8 @@ [ 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/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/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:3: + 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: /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 | ^~~~~~~~~~~~~~ @@ -219309,7 +219343,7 @@ 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/parsing_command_line_arguments/assignment2_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -219380,16 +219414,30 @@ /usr/include/c++/14/bits/stl_function.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: +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/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: + 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/demos/tutorial/parsing_command_line_arguments/assignment2_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 | ^~~~~~~~~~~~~~ @@ -219399,7 +219447,7 @@ 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/pairwise_sequence_alignment/assignment5_step6.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -219463,6 +219511,13 @@ /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 @@ -219470,32 +219525,13 @@ /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, - 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 @@ -220063,6 +220099,8 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example1.cpp [ 68%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_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_assignment6_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_assignment6_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/tutorial/parsing_command_line_arguments/assignment6_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_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/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, @@ -220141,6 +220179,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 68%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 @@ -220148,6 +220190,11 @@ /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_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.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_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example1_detailed.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 @@ -220155,17 +220202,6 @@ /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_parsing_command_line_arguments_assignment6_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/tutorial/parsing_command_line_arguments/assignment6_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 68%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.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_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example1_detailed.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, @@ -220273,6 +220309,17 @@ 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_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.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_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_own_function.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, @@ -220351,8 +220398,6 @@ /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_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' 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 @@ -220360,15 +220405,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 69%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.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_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_own_function.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 @@ -220481,17 +220517,6 @@ 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' In file included from /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, @@ -220564,14 +220589,12 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o /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 | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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: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 @@ -220586,6 +220609,19 @@ /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, @@ -220691,19 +220727,6 @@ 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: @@ -220812,6 +220835,32 @@ /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_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 +[ 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/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: @@ -220895,19 +220944,6 @@ /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, @@ -220918,21 +220954,6 @@ /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: -/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/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp:3: @@ -221016,19 +221037,21 @@ /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_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_assignment1_solution -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=" -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_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_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_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 +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, @@ -221054,8 +221077,21 @@ /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 [ 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_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_assignment1_solution +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=" +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_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_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_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 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment2 @@ -221150,31 +221186,6 @@ /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, @@ -221324,19 +221335,16 @@ /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/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: @@ -221346,6 +221354,21 @@ /usr/include/c++/14/bits/stl_function.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/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> @@ -221620,6 +221643,32 @@ /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_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 +[ 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/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, @@ -221769,19 +221818,89 @@ /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/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: +/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_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/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: @@ -222032,6 +222151,16 @@ /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/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/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, @@ -222065,103 +222194,6 @@ /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): | ^~~~~ -In file included from /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: -/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_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, - 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 - | ^~~~~~~~~~~~~~ -[ 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' 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] @@ -222170,10 +222202,6 @@ /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=" 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> @@ -222181,22 +222209,30 @@ /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_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 +[ 70%] 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 +[ 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' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +[ 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 +[ 70%] 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_exact.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_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_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' +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_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%] 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, @@ -222282,31 +222318,6 @@ /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, @@ -222456,19 +222467,31 @@ /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_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 -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_exact -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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/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/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: @@ -222719,6 +222742,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 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, @@ -222752,6 +222777,17 @@ /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): | ^~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +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_exact +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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, @@ -222901,6 +222937,19 @@ /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_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 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: @@ -223151,19 +223200,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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 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, @@ -223216,6 +223252,155 @@ /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): | ^~~~~ +In file included from /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/q_gram_index/index_assignment5.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/q_gram_index/index_assignment5.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 '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(); @@ -223580,6 +223765,15 @@ /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) | ^~~~~~ +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_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_); @@ -223785,6 +223979,13 @@ /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: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_); @@ -223867,91 +224068,32 @@ /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/q_gram_index/index_assignment5.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/q_gram_index/index_assignment5.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 - | ^~~~~~~~~~~~~~ +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/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::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/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/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_); @@ -224046,57 +224188,99 @@ /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 - | ^~~~~~~~~~~~~~ -/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 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:614:26: required from 'bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]' - 614 | createSuffixArray(indexSA(index), indexText(index), alg); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:658:27: required from 'bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]' - 658 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 = IndexEsa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:60:21: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' - 60 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/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 = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' - 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:23:16: required from here - 23 | while (find(finder, "be")) - | ~~~~^~~~~~~~~~~~~~ -/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_); +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 '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 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:614:26: required from 'bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]' + 614 | createSuffixArray(indexSA(index), indexText(index), alg); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:658:27: required from 'bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]' + 658 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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 = IndexEsa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:60:21: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' + 60 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/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 = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' + 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:23:16: required from here + 23 | while (find(finder, "be")) + | ~~~~^~~~~~~~~~~~~~ +/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_); @@ -224135,63 +224319,158 @@ /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: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 - | ^~~~~~~~~~~~~~ +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/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::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/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::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 | ^~~~~~~~~~~~~~ -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/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/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/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 | ^~~~~~~~~~~~~~ -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, - | ^~~~~~~~~~~~~~~ +/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 | ^~~~~~~~~~~~~~~ -/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 < +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/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/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/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::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 >, 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); @@ -224298,9 +224577,122 @@ /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: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 + | ^~~~~~~~~~~~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_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_q_gram_index_index_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_q_gram_index_index_assignment5.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_assignment5 -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_q_gram_index_index_assignment5 +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.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_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.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/q_gram_index/index_assignment6.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/tutorial/q_gram_index/index_assignment6.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: + 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> | ^~~~~~~~~~~~~~ @@ -224314,6 +224706,78 @@ /usr/include/c++/14/bits/stl_function.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/demos/tutorial/q_gram_index/index_assignment6.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 + | ^~~~~~~~~~~~~~ +/usr/include/c++/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 @@ -224548,22 +225012,24 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_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_q_gram_index_index_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_q_gram_index_index_assignment5.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_assignment5 -lrt -lz -lbz2 +[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_assignment6 +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_assignment6.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment6.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_assignment6 -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_q_gram_index_index_assignment5 -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 +[ 72%] Built target demo_tutorial_q_gram_index_index_assignment6 +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 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.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[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_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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.dir/tutorial/q_gram_index/index_qgram.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.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/q_gram_index/index_assignment6.cpp:4: + 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/q_gram_index/index_qgram.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 | ^~~~~~~~~~~~~~ @@ -224573,7 +225039,7 @@ 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/q_gram_index/index_assignment6.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -224644,48 +225110,14 @@ /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/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/demos/tutorial/q_gram_index/index_assignment6.cpp:5: +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 | ^~~~~~~~~~~~~~ @@ -224742,6 +225174,22 @@ /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 @@ -224976,34 +225424,31 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_assignment6 -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_assignment6.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_assignment6.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_assignment6 -lrt -lz -lbz2 +[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_qgram +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.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram -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_q_gram_index_index_assignment6 -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 +[ 72%] Built target demo_tutorial_q_gram_index_index_qgram +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 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_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 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_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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.dir/tutorial/q_gram_index/index_qgram.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp +[ 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 In file included from /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/q_gram_index/index_qgram.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.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/q_gram_index/index_qgram.cpp:2: +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/q_gram_index/index_qgram_hash.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -225138,6 +225583,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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 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: @@ -225154,6 +225601,17 @@ /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_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/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 @@ -225388,31 +225846,36 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_qgram -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.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram -lrt -lz -lbz2 +[ 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' -[ 72%] Built target demo_tutorial_q_gram_index_index_qgram -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 +[ 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_q_gram_index_index_qgram_hash.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_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_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build +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_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%] 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/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/q_gram_index/index_qgram_hash.cpp:3: + 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/step1.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/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/q_gram_index/index_qgram_hash.cpp:2: +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 | ^~~~~~~~~~~~~~ @@ -225483,14 +225946,124 @@ /usr/include/c++/14/bits/stl_function.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: +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/pipe.h:62: +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/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: +/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, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:65: /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 | ^~~~~~~~~~~~~~ @@ -225509,8 +226082,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_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 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 @@ -225549,33 +226120,6 @@ /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_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/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 @@ -225803,17 +226347,10 @@ /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/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/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/step1.cpp:1: + 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 | ^~~~~~~~~~~~~~ @@ -225908,10 +226445,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_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' 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] @@ -225940,15 +226473,13 @@ /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=" -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/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/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] @@ -226004,7 +226535,7 @@ 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/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 | ^~~~~~~~~~~~~~~ @@ -226311,13 +226842,6 @@ /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]' @@ -226369,93 +226893,6 @@ /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/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/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); @@ -226531,17 +226968,6 @@ /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/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/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); @@ -226647,21 +227073,6 @@ /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: -/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())) @@ -226696,19 +227107,6 @@ /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/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_ = 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)); @@ -226854,14 +227252,13 @@ /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/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 + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.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>&]': @@ -226945,367 +227342,6 @@ /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 - | ^~~~~~~~~~~~~~~ -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/realign.h:48, - 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 - | ^~~~~~~~~~~~~~~ -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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:65: -/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/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]' @@ -228326,6 +228362,27 @@ /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, @@ -228553,27 +228610,6 @@ /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 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, @@ -228604,113 +228640,6 @@ /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, @@ -228968,6 +228897,113 @@ /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, @@ -229089,6 +229125,19 @@ 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_example1.dir/tutorial/sam_and_bam_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_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp +[ 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/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, @@ -229213,118 +229262,6 @@ /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/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_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, @@ -229412,6 +229349,33 @@ /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/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 @@ -229419,6 +229383,57 @@ /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_ = 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, @@ -229449,6 +229464,109 @@ /usr/include/c++/14/bits/stl_function.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; + | ^~~~~~ +/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 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, @@ -229700,93 +229818,15 @@ /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/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) - | ^~~~~~~~ /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 +[ 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=" @@ -229795,10 +229835,8 @@ 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 In file included from /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, @@ -229843,6 +229881,7 @@ /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 -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/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 246 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -229861,6 +229900,7 @@ /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' /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 | ^~~~~~~~~~~~~~ @@ -229873,6 +229913,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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 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 @@ -229880,6 +229922,13 @@ /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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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/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 @@ -229887,8 +229936,6 @@ /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, @@ -229899,8 +229946,6 @@ /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_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' 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> @@ -229908,15 +229953,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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 @@ -230237,6 +230273,27 @@ /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; + | ^~~~~~ 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, @@ -230488,27 +230545,6 @@ /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 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, @@ -230736,8 +230772,6 @@ /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 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] @@ -230762,6 +230796,12 @@ /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); + | ^ +[ 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 @@ -230773,10 +230813,19 @@ 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 -/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_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, @@ -230871,19 +230920,6 @@ /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, @@ -230914,84 +230950,6 @@ /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/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, @@ -231086,6 +231044,84 @@ /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/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/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, @@ -231116,17 +231152,6 @@ /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; - | ^~~~~~ 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_]': @@ -231154,16 +231179,6 @@ /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/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/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())) @@ -231215,6 +231230,48 @@ /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, @@ -231466,33 +231523,10 @@ /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; - | ^~~~~~ /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_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 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, @@ -231720,17 +231754,6 @@ /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_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 -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_solution2 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_tutorial_seed_and_extend_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_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.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_example1.dir/tutorial/seed_and_extend/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_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.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] @@ -231759,6 +231782,32 @@ /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); | ^ +[ 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 +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_solution2 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_tutorial_seed_and_extend_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_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.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_example1.dir/tutorial/seed_and_extend/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_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp +[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_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_sam_and_bam_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_sam_and_bam_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution3 -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_solution3 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_seed_and_extend_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_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.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_example2.dir/tutorial/seed_and_extend/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_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.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, @@ -231847,8 +231896,6 @@ /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_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_sam_and_bam_io_solution3.dir/link.txt --verbose=1 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, @@ -231909,17 +231956,6 @@ /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_sam_and_bam_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution3 -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_solution3 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_seed_and_extend_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_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.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_example2.dir/tutorial/seed_and_extend/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_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/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/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -232163,27 +232199,6 @@ /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/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, @@ -232272,19 +232287,27 @@ /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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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: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, @@ -232588,6 +232611,8 @@ /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_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/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 @@ -232595,6 +232620,17 @@ /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/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] @@ -232623,6 +232659,94 @@ [ 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, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.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/example4.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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.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] @@ -232719,6 +232843,66 @@ /usr/include/c++/14/bits/stl_function.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/example4.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/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] @@ -232769,6 +232953,22 @@ /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/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 @@ -232833,6 +233033,32 @@ /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/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 > @@ -233020,217 +233246,6 @@ /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: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/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/example4.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/example4.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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.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: -/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 > @@ -233259,15 +233274,29 @@ /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 > | ^~~~~~~~~~~~~~~ +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:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/include/c++/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: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: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/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -233453,6 +233482,13 @@ /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 + | ^~~~~~~~~~~~~~~ [ 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 @@ -233466,8 +233502,6 @@ 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 In file included from /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, @@ -233552,12 +233586,6 @@ /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_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' -[ 75%] Built target demo_tutorial_seed_and_extend_example3 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 @@ -233565,11 +233593,6 @@ /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_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.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_example6.dir/tutorial/seed_and_extend/example6.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example6.dir/tutorial/seed_and_extend/example6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp 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, @@ -233894,6 +233917,32 @@ /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_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 +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 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.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_example6.dir/tutorial/seed_and_extend/example6.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_example6.dir/tutorial/seed_and_extend/example6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp +[ 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_example5 +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=" +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_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.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_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 In file included from /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, @@ -233982,8 +234031,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 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, @@ -234044,17 +234091,6 @@ /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_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_example5 -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=" -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_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.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_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 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: @@ -234305,20 +234341,6 @@ /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, - 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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:3: @@ -234410,10 +234432,20 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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' +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/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] @@ -234422,9 +234454,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 75%] Built target demo_tutorial_seed_and_extend_example6 -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' 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> @@ -234432,12 +234461,6 @@ /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 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.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_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/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 @@ -234745,6 +234768,19 @@ /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_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_example6 +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=" +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_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.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_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/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: @@ -236812,6 +236848,8 @@ /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 > @@ -237013,6 +237051,17 @@ /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_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_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_seed_and_extend_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_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.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_solution5.dir/tutorial/seed_and_extend/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_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.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 @@ -237039,19 +237088,6 @@ /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 -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_solution4.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/tutorial/seed_and_extend/solution4.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution4 -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_solution4 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_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_seed_and_extend_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_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.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_solution5.dir/tutorial/seed_and_extend/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_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp -[ 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=" @@ -237224,86 +237260,6 @@ /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/tutorial/seed_and_extend/solution6.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/solution6.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: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 @@ -237330,17 +237286,6 @@ /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, - 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/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 > @@ -237542,6 +237487,118 @@ /usr/include/c++/14/bits/stl_function.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/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.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/solution6.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] @@ -237570,13 +237627,6 @@ /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/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, @@ -237637,20 +237687,6 @@ /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: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 @@ -237885,6 +237921,19 @@ /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_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 +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_solution5 +make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_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_tutorial_seeds_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_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.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_seeds_example1.dir/tutorial/seeds/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_seeds_example1.dir/tutorial/seeds/example1.cpp.o -MF CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.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: @@ -238293,19 +238342,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 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 -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_solution5 -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_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_tutorial_seeds_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_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.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_seeds_example1.dir/tutorial/seeds/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_seeds_example1.dir/tutorial/seeds/example1.cpp.o -MF CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp /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; @@ -239799,6 +239835,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 77%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution6 +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_solution6.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_solution6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution6 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Built target demo_tutorial_seed_and_extend_solution6 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_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_sequence_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_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_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_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.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, @@ -240070,19 +240119,6 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 77%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution6 -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_solution6.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_solution6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution6 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target demo_tutorial_seed_and_extend_solution6 -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_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_sequence_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_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_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_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_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, @@ -240473,6 +240509,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_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_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_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/stream.h:62, @@ -240575,10 +240615,19 @@ /usr/include/c++/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); - | ^ +[ 77%] Linking CXX executable ../bin/demo_tutorial_sequence_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_sequence_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_sequence_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -o ../bin/demo_tutorial_sequence_io_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Built target demo_tutorial_sequence_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_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_sequence_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_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_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_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_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, @@ -240850,19 +240899,6 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 77%] Linking CXX executable ../bin/demo_tutorial_sequence_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_sequence_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_sequence_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -o ../bin/demo_tutorial_sequence_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target demo_tutorial_sequence_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_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_sequence_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_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_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_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_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, @@ -241253,6 +241289,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/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_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.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, @@ -241355,6 +241395,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Built target demo_tutorial_sequence_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_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_sequences_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_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/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_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_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, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -241433,6 +241486,80 @@ /usr/include/c++/14/bits/stl_function.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/sequences/assignment_1_solution.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/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/sequences/assignment_1_solution.cpp:5: +/usr/include/c++/14/bits/stl_function.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/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 > >]' @@ -241459,6 +241586,13 @@ /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/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())) @@ -241506,6 +241640,13 @@ /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())) @@ -241626,111 +241767,6 @@ /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 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target demo_tutorial_sequence_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_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_sequences_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_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/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_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/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/sequences/assignment_1_solution.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/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/sequences/assignment_1_solution.cpp:5: -/usr/include/c++/14/bits/stl_function.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 - | ^~~~~~~~~~~~~~ [ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_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_sequences_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_sequences_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_1_solution -lrt -lz -lbz2 @@ -241744,10 +241780,6 @@ 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, @@ -241839,11 +241871,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +[ 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_sequence_io_solution4 +[ 78%] Built target demo_tutorial_sequences_assignment_2_solution make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -241852,17 +241884,10 @@ 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' +/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, @@ -241898,7 +241923,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o /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 | ^~~~~~~~~~~~~~ @@ -241917,7 +241941,6 @@ /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/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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 /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 | ^~~~~~~~~~~~~~ @@ -241956,6 +241979,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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 +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 @@ -242060,14 +242096,6 @@ /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=" In file included from /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, @@ -242115,14 +242143,12 @@ /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' /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 | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build /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 | ^~~~~~~~~~~~~~ @@ -242135,7 +242161,6 @@ /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' /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 | ^~~~~~~~~~~~~~ @@ -242155,8 +242180,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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 @@ -242164,6 +242187,19 @@ /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 In file included from /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, @@ -242255,31 +242291,31 @@ /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 [ 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_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 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' -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 [ 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 -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_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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 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_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_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build 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' -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 -[ 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 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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, @@ -242459,24 +242495,24 @@ /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_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' -[ 78%] Built target demo_tutorial_sequences_base +[ 79%] Built target demo_tutorial_sequences_assignment_6_solution 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' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o +[ 79%] 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_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 +[ 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 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 +[ 79%] Built target demo_tutorial_sequences_base 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=" @@ -242594,6 +242630,84 @@ /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, @@ -242690,116 +242804,6 @@ /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/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 > >]' @@ -242876,6 +242880,51 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, + 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 + | ^~~~~~~~~~~~~~~ +[ 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 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.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_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: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: @@ -242998,21 +243047,17 @@ /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) | ^~~~~~~~ -[ 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 +[ 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_copy -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend +[ 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_functionality1.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_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_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build +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_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 -[ 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 In file included from /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, @@ -243088,6 +243133,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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: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 @@ -243095,8 +243142,6 @@ /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_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' 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 @@ -243104,15 +243149,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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/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 @@ -243198,31 +243234,6 @@ /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: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, @@ -243305,13 +243316,11 @@ /usr/include/c++/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/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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -243324,9 +243333,11 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ @@ -243337,6 +243348,38 @@ /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/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 + | ^~~~~~~~~~~~~~ +/build/reproducible-path/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]' @@ -243363,13 +243406,6 @@ /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/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, @@ -243654,24 +243690,24 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/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_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -MF CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp -[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_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_in_depth_base.dir/link.txt --verbose=1 [ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_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_in_depth_assignment_exact_generous_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_in_depth_base.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_base -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_sequences_in_depth_assignment_exact_generous_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_sequences_in_depth_base +[ 80%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[4]: 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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_in_depth_assignment_exact_generous_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -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' +[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_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_in_depth_base.dir/link.txt --verbose=1 [ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -[ 80%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -MF CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.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_sequences_in_depth_base.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 80%] Built target demo_tutorial_sequences_in_depth_base make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_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_simple_rna_seq_base.dir/DependInfo.cmake "--color=" @@ -243897,6 +243933,10 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_example_overflow +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_in_depth_example_overflow.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_in_depth_example_overflow.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_example_overflow -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: /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] @@ -243905,6 +243945,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 80%] Built target demo_tutorial_sequences_in_depth_example_overflow +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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_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_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.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 @@ -243949,8 +243998,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_example_overflow -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_in_depth_example_overflow.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 > >]' @@ -244028,17 +244075,6 @@ /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) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_in_depth_example_overflow.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_example_overflow -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_sequences_in_depth_example_overflow -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 -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_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_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -244291,6 +244327,13 @@ /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/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: +/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); + | ^ [ 80%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_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_simple_rna_seq_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_simple_rna_seq_base.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_base -lrt -lz -lbz2 @@ -244304,13 +244347,6 @@ 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 -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/store.h:36: -/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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -244421,6 +244457,8 @@ /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 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 @@ -244434,6 +244472,17 @@ /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_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/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] @@ -244610,19 +244659,6 @@ /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) | ^~~~~~~~ -[ 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/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<> > > > >]' @@ -244932,12 +244968,6 @@ /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 > >]' @@ -245196,6 +245226,12 @@ /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] @@ -245241,6 +245277,45 @@ /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 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, @@ -245468,27 +245543,6 @@ /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 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, @@ -245504,28 +245558,6 @@ /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); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_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_simple_rna_seq_genequant_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_simple_rna_seq_genequant_assignment2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' 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, @@ -245753,15 +245785,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.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_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 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, @@ -245777,8 +245800,21 @@ /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/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_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_simple_rna_seq_genequant_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_simple_rna_seq_genequant_assignment2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment2 -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_assignment2 +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.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_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 +In file included from /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_assignment4.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] @@ -245908,6 +245944,19 @@ /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/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 @@ -245952,19 +246001,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_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/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 > >]' @@ -246551,6 +246587,12 @@ /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/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<> > > > >]' @@ -246685,12 +246727,6 @@ /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/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] @@ -246712,12 +246748,6 @@ /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 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, @@ -246736,6 +246766,12 @@ /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] @@ -246757,24 +246793,6 @@ /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 = 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, @@ -247002,6 +247020,24 @@ /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 = 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, @@ -247244,6 +247280,19 @@ /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 +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_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=" +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_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.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_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 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, @@ -247259,25 +247308,6 @@ /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 -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_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=" -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_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.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_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_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_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 In file included from /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, @@ -247295,8 +247325,6 @@ /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_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" /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 | ^~~~~~~~~~~~~~ @@ -247357,9 +247385,6 @@ /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_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' 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 @@ -247367,8 +247392,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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, @@ -247508,6 +247531,8 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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 /build/reproducible-path/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())) @@ -247584,6 +247609,17 @@ /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) | ^~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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/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<> > > > >]' @@ -247893,6 +247929,12 @@ /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/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 > >]' @@ -248017,6 +248059,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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<> > > > >]' @@ -248151,33 +248214,6 @@ /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/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, @@ -248223,24 +248259,6 @@ /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 = 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, @@ -248483,6 +248501,24 @@ /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, @@ -248710,6 +248746,19 @@ /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 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, @@ -248725,19 +248774,6 @@ /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 In file included from /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, @@ -248913,6 +248949,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 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 > >]' @@ -248986,6 +249024,8 @@ /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_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' /build/reproducible-path/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())) @@ -249011,6 +249051,15 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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/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]' @@ -249037,8 +249086,6 @@ /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_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 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<> > > > >]' @@ -249173,17 +249220,6 @@ /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_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, @@ -249359,12 +249395,6 @@ /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/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]' @@ -249442,6 +249472,12 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +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); + | ^ /build/reproducible-path/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())) @@ -249945,21 +249981,6 @@ /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 = 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 /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, @@ -249978,6 +249999,21 @@ /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 = 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 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, @@ -250205,19 +250241,6 @@ /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_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, @@ -250233,6 +250256,19 @@ /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 file included from /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, @@ -250410,6 +250446,17 @@ | ^~~~~~~~~~~~~~~ [ 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' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp 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::nodeDown(const Iter >&) [with TFragmentStore = const FragmentStore<>; TSpec = void]': /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp:146:30: required from here @@ -250427,17 +250474,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_annotation.h:272:5: note: because 'seqan::Iter, seqan::AnnotationTree<> >' has user-provided 'const seqan::Iter >& seqan::Iter >::operator=(const seqan::Iter >&) [with TFragmentStore = const seqan::FragmentStore<>; TSpec = void]' 272 | operator = (Iter const &_origin) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp 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]' @@ -251102,6 +251138,96 @@ 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, @@ -251329,89 +251455,6 @@ /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/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 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, @@ -251427,13 +251470,6 @@ /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/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 @@ -251538,8 +251574,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 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 [ 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 @@ -251553,6 +251587,8 @@ 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_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 +[ 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 @@ -251772,6 +251808,19 @@ 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_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 In file included from /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, @@ -251860,32 +251909,6 @@ /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_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, @@ -251974,6 +251997,32 @@ /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_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, @@ -252062,37 +252111,24 @@ /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_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 -[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_iterators -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_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 -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_iterators.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -o ../bin/demo_tutorial_string_sets_example_iterators -lrt -lz -lbz2 +[ 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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_string_sets_example_iterators +[ 83%] Built target demo_tutorial_vcf_io_base make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_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_tutorial_vcf_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_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build 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_example1.dir/tutorial/vcf_io/example1.cpp.o +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_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_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp -[ 84%] 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 +[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_iterators +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_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 -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_iterators.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -o ../bin/demo_tutorial_string_sets_example_iterators -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_base +[ 84%] Built target demo_tutorial_string_sets_example_iterators make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_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_vcf_io_solution1.dir/DependInfo.cmake "--color=" @@ -252195,6 +252231,53 @@ /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, @@ -252298,53 +252381,6 @@ /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/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/solution1.cpp:8:84: required from here 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); | ^ @@ -252430,12 +252466,12 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution1 make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build -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 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_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_solution1 @@ -252541,6 +252577,53 @@ /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/solution2.cpp:10:88: required from here + 10 | 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/solution2.cpp:10:88: required from here + 10 | 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, @@ -252635,53 +252718,6 @@ /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, - 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/solution2.cpp:10:88: required from here - 10 | 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/solution2.cpp:10:88: required from here - 10 | 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); @@ -252727,6 +252763,17 @@ 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_alphabet.dir/unassigned_or_unused/alphabet.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/alphabet.cpp +[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_alphabet +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_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 -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_alphabet.dir/link.d CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -o ../bin/demo_unassigned_or_unused_alphabet -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_alphabet +make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.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, @@ -252808,6 +252855,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.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 @@ -252829,19 +252878,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_alphabet -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_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 -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_alphabet.dir/link.d CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -o ../bin/demo_unassigned_or_unused_alphabet -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_alphabet -make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.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_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.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, @@ -253018,101 +253054,6 @@ /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 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 = 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/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, @@ -253197,6 +253138,55 @@ /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/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 = 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/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, @@ -253208,6 +253198,52 @@ /usr/include/c++/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)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/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] @@ -253597,8 +253633,9 @@ [ 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: + 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/bam_library_size.cpp:44: /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 | ^~~~~~~~~~~~~~ @@ -253608,7 +253645,7 @@ 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/unassigned_or_unused/arg_align.cpp:24: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_library_size.cpp:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -253679,49 +253716,16 @@ /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/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/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/bam_library_size.cpp:44: + 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: /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 | ^~~~~~~~~~~~~~ @@ -253731,7 +253735,7 @@ 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/unassigned_or_unused/bam_library_size.cpp:39: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/arg_align.cpp:24: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -253802,7 +253806,11 @@ /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/file.h:92: +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 | ^~~~~~~~~~~~~~ @@ -253810,6 +253818,34 @@ 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, @@ -254178,6 +254214,30 @@ /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: @@ -254230,42 +254290,18 @@ /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/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/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; - | ^~~~~~ /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 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/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 276 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -254292,6 +254328,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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/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, @@ -254571,19 +254620,6 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 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: @@ -254760,27 +254796,6 @@ /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/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: @@ -254860,6 +254875,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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, @@ -255124,6 +255160,27 @@ 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_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/benchmark_stream.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/stream.h:62, @@ -255226,27 +255283,6 @@ /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, @@ -256049,6 +256085,19 @@ 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_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, @@ -256148,8 +256197,110 @@ /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_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 +In file included from /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, @@ -256169,8 +256320,6 @@ /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_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' 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 @@ -256184,15 +256333,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 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/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: @@ -256287,6 +256427,87 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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/unassigned_or_unused/file_speed.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/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/unassigned_or_unused/file_speed.cpp:4: +/usr/include/c++/14/bits/stl_function.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())) @@ -256312,6 +256533,13 @@ /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())) @@ -256432,203 +256660,11 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_speed.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/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/unassigned_or_unused/file_speed.cpp:4: -/usr/include/c++/14/bits/stl_function.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_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 +[ 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_format +[ 87%] Built target demo_unassigned_or_unused_file_speed 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=" @@ -256637,19 +256673,6 @@ 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_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/filter_sam.cpp -[ 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/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, @@ -256741,89 +256764,6 @@ /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/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/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, @@ -256842,6 +256782,8 @@ /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 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 @@ -256855,6 +256797,17 @@ /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_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/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] @@ -256900,16 +256853,6 @@ /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/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< @@ -256917,21 +256860,6 @@ /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: -/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 > >]' @@ -256958,6 +256886,89 @@ /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 + | ^~~~~~~~~~~~~~~ /build/reproducible-path/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())) @@ -257101,6 +257112,16 @@ /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/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())) @@ -257491,6 +257512,14 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +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 + | ^~~~~~~~~~~~~~ /build/reproducible-path/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)); @@ -257523,6 +257552,13 @@ /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/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<> >, 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; @@ -257686,8 +257722,6 @@ /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) | ^~~~~~~~ -[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_find_wild -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_find_wild.dir/link.txt --verbose=1 /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 = SimpleType*; TSpec = Tag; TIntegral = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:169:56: required from 'typename seqan::Source > > >::Type seqan::source(const Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Source > > >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 169 | return begin(source(*me.data_container), Rooted()) + me.current.seqPos; @@ -257734,8 +257768,6 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_find_wild.dir/link.d CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -o ../bin/demo_unassigned_or_unused_find_wild -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/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_); @@ -257782,6 +257814,10 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_find_wild +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_find_wild.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_find_wild.dir/link.d CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -o ../bin/demo_unassigned_or_unused_find_wild -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_find_wild make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -258091,6 +258127,27 @@ 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 = 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); @@ -258119,27 +258176,6 @@ /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; - | ^~~~~~ [ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_gff2gtf 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_gff2gtf.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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_gff2gtf.dir/link.d CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/unassigned_or_unused/gff2gtf.cpp.o -o ../bin/demo_unassigned_or_unused_gff2gtf -lrt -lz -lbz2 @@ -258422,6 +258458,263 @@ /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 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/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: @@ -258739,263 +259032,6 @@ /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 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; - | ^~~~~~ [ 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 @@ -264037,6 +264073,8 @@ 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 In file included from /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, @@ -264148,6 +264186,8 @@ /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_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' 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 @@ -264155,12 +264195,16 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 89%] Built target demo_unassigned_or_unused_index_mums /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 | ^~~~~~~~~~~~~~ +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=" 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, @@ -264186,6 +264230,11 @@ /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_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/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: @@ -264436,32 +264485,6 @@ /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, @@ -264611,90 +264634,6 @@ /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/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/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: @@ -264711,13 +264650,6 @@ /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/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 @@ -264952,8 +264884,19 @@ /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_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 +[ 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/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<>]' @@ -265009,12 +264952,6 @@ /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_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=" 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>]' @@ -265044,11 +264981,214 @@ /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/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 +[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_supermaxrepeats make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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 [ 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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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, @@ -265199,19 +265339,19 @@ /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 +[ 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' -[ 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 +[ 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_modreverse.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_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_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build +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_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 +[ 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/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: @@ -265485,10 +265625,47 @@ /usr/include/c++/14/bits/stl_function.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/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: + 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 | ^~~~~~~~~~~~~~ @@ -265498,7 +265675,7 @@ 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/unassigned_or_unused/modifier_modreverse.cpp:2: + 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 | ^~~~~~~~~~~~~~ @@ -265562,6 +265739,13 @@ /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/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 @@ -265576,50 +265760,12 @@ /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/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/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 + | ^~~~~~~~~~~~~~ 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 > >]' @@ -265806,8 +265952,6 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 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 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/minimapper.cpp:34: @@ -265899,8 +266043,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Owner > >; TShapeSpec = seqan::UngappedShape<11>]' 143 | Index(Index 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_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:90: /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<> > > > > > >]' @@ -265975,7 +266117,6 @@ /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) | ~~~~~~~~~~~~~~~~^~~ -[ 90%] Built target demo_unassigned_or_unused_modifier_modreverse /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>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, InfixSegment>, ModView > > >, Tag >, 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>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, InfixSegment>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 250 | return value(me); @@ -266012,7 +266153,6 @@ /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::ModView > > >, seqan::Tag >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend /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/modifier/modifier_view.h:151:25: required from '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>]' 151 | _host(_toPointer(host)), tmp_value() @@ -266044,13 +266184,6 @@ /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) | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 /build/reproducible-path/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)); @@ -266295,6 +266428,19 @@ /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_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +[ 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 +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_modview +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_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_unassigned_or_unused_modifier_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_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.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_nested.dir/unassigned_or_unused/modifier_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_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_nested.cpp /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 = SimpleType*; TSpec = Tag; TIntegral = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:169:56: required from 'typename seqan::Source > > >::Type seqan::source(const Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Source > > >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 169 | return begin(source(*me.data_container), Rooted()) + me.current.seqPos; @@ -266390,116 +266536,6 @@ 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/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 -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_modview -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_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_unassigned_or_unused_modifier_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_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.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_nested.dir/unassigned_or_unused/modifier_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_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_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, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_nested.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 @@ -267006,11 +267042,11 @@ /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_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 +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_rooted_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_rooted_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_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_minimapper +[ 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" @@ -267019,11 +267055,11 @@ 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_rooted_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_rooted_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_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 +[ 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_rooted_iterator +[ 90%] Built target demo_unassigned_or_unused_minimapper 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=" @@ -267262,6 +267298,38 @@ /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: /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 @@ -267306,38 +267374,6 @@ /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/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: @@ -268074,6 +268110,27 @@ 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_seeds.dir/unassigned_or_unused/seeds.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_seeds.dir/unassigned_or_unused/seeds.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_seeds.dir/unassigned_or_unused/seeds.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_seeds.dir/unassigned_or_unused/seeds.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/seeds.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/pipe.h:41, @@ -268224,27 +268281,6 @@ /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/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -269245,6 +269281,263 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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, + 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; + | ^~~~~~ /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(); @@ -269818,233 +270111,6 @@ /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 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/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_); @@ -270356,36 +270422,6 @@ /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 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; - | ^~~~~~ /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); @@ -271333,19 +271369,6 @@ 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, @@ -271437,6 +271460,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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 +[ 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, @@ -271528,19 +271577,6 @@ /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_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, @@ -271632,11 +271668,11 @@ /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_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_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=" @@ -271645,11 +271681,11 @@ 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_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_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=" @@ -271671,99 +271707,8 @@ 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 -In file included from /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/tutorial_sequence/replace_as.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/unassigned_or_unused/tutorial_sequence/replace_as.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 - | ^~~~~~~~~~~~~~~ [ 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 - | ^~~~~~~~~~~~~~ -/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 @@ -271775,23 +271720,10 @@ 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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp:5: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/replace_as.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 | ^~~~~~~~~~~~~~ @@ -271801,7 +271733,7 @@ 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/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/replace_as.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -271882,7 +271814,7 @@ 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/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp:6: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_all_strings.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 | ^~~~~~~~~~~~~~ @@ -271892,7 +271824,7 @@ 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/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -271970,6 +271902,19 @@ /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_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 [ 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 @@ -271983,23 +271928,10 @@ 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 -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_iterator_demo -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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.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_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.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/example1.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp:6: /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 | ^~~~~~~~~~~~~~ @@ -272009,7 +271941,7 @@ 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/unassigned_or_unused/tutorials_custim_io/example1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp:4: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272090,7 +272022,7 @@ 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/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:6: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/example1.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 | ^~~~~~~~~~~~~~ @@ -272100,7 +272032,7 @@ 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/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/example1.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272178,6 +272110,19 @@ /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_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 +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_iterator_demo +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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.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_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp [ 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 @@ -272191,23 +272136,10 @@ 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: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:6: /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 | ^~~~~~~~~~~~~~ @@ -272217,7 +272149,7 @@ 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/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272298,7 +272230,7 @@ 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/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:5: + 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 | ^~~~~~~~~~~~~~ @@ -272308,7 +272240,7 @@ 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/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:1: + 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 | ^~~~~~~~~~~~~~ @@ -272386,6 +272318,19 @@ /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_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 @@ -272399,23 +272344,10 @@ 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 -[ 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_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, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.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 | ^~~~~~~~~~~~~~ @@ -272425,7 +272357,7 @@ 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/unassigned_or_unused/tutorials_custim_io/solution1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272506,7 +272438,7 @@ 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/demos/unassigned_or_unused/tutorials_custim_io/solution2.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.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 | ^~~~~~~~~~~~~~ @@ -272516,7 +272448,7 @@ 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/unassigned_or_unused/tutorials_custim_io/solution2.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272594,6 +272526,19 @@ /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_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_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 [ 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 @@ -272602,28 +272547,15 @@ 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=" -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_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_unassigned_or_unused_tutorials_custim_io_solution2.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_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 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 -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]: 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]: 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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -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, 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/solution3.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution2.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 | ^~~~~~~~~~~~~~ @@ -272633,7 +272565,7 @@ 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/unassigned_or_unused/tutorials_custim_io/solution3.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution2.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272714,7 +272646,7 @@ 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/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution3.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 | ^~~~~~~~~~~~~~ @@ -272724,7 +272656,7 @@ 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/unassigned_or_unused/tutorials_custim_io/solution4.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution3.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272795,6 +272727,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_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_unassigned_or_unused_tutorials_custim_io_solution2.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 @@ -272802,62 +272736,34 @@ /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 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -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' -[ 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=" +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +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]: 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 -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]: 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/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: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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 = 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 function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned 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:24:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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 = 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; - | ^~~~~~ -[ 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 +[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/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_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 +[ 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_solution4 -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend +[ 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/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build +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/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -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 -ffloat-store -ffp-contract=off -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -MF CMakeFiles/bisar.dir/bisar.cpp.o.d -o CMakeFiles/bisar.dir/bisar.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp +[ 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, - 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/alf/alf.cpp:46: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.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 | ^~~~~~~~~~~~~~ @@ -272867,7 +272773,7 @@ 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/apps/alf/alf.cpp:42: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -272945,11 +272851,49 @@ /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/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: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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 = 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 function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned 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:24:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may 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 = 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; + | ^~~~~~ +[ 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 +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_solution4 +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[4]: 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 94%] Building CXX object apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -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 -ffloat-store -ffp-contract=off -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -MF CMakeFiles/bisar.dir/bisar.cpp.o.d -o CMakeFiles/bisar.dir/bisar.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.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/bs_tools/bisar.cpp:39: + 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/alf/alf.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 | ^~~~~~~~~~~~~~ @@ -272959,10 +272903,7 @@ 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/apps/bs_tools/bisar.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:42: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -273017,13 +272958,6 @@ /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 | ^~~~~~~~~~~~~~ -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 - | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -273047,43 +272981,19 @@ /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/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> - | ^~~~~~~~~~~~~~ +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/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/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:41: + 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> | ^~~~~~~~~~~~~~ @@ -273110,15 +273020,9 @@ /usr/include/c++/14/bits/stl_function.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: +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 | ^~~~~~~~~~~~~~~ @@ -273162,110 +273066,101 @@ /usr/include/c++/14/bits/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/bs_tools/bisar.cpp:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_score.h:28:57: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 28 | struct FunctorDna5OrdValueComplement : 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/bs_tools/bisar.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/apps/bs_tools/bisar.cpp:37: /usr/include/c++/14/bits/stl_function.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< - | ^~~~~~~~~~~~~~~ +/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/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/bs_tools/bisar.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/align.h:90: -/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/apps/bs_tools/bisar.h:157:26: required from 'int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]' - 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:1168:17: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' - 1168 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); - | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/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) - | ~~~~~~~~~~~~~~~~^~~ +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/statistics.h:41, @@ -273554,13 +273449,134 @@ /usr/include/c++/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/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: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: +/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/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) : + | ^ +/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/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/apps/bs_tools/bisar.cpp:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_score.h:28:57: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 28 | struct FunctorDna5OrdValueComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.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: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/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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273573,60 +273589,15 @@ /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/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/apps/bs_tools/bisar.h:157:26: required from 'int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]' - 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:1168:17: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' - 1168 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); - | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/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_) - | ^~~~~~~~ -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())) @@ -273637,15 +273608,9 @@ /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); | ^~~~~~~~~~~~~~~ @@ -273655,28 +273620,22 @@ /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_ = 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_ = 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, TagList, TagList, TagList, 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 > >]' 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]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/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/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/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); | ^~~~~~~~~~~~~~~ @@ -273686,33 +273645,22 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -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/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/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/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))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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); | ^~~~~~~~~~~~~~~ @@ -273722,45 +273670,33 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(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) : - | ^ -/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 '< >' -/build/reproducible-path/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]' +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]' +/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/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/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_ = 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_ = 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)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -273771,15 +273707,9 @@ /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); | ^~~~~~~~~~~~~~~ @@ -273789,23 +273719,6 @@ /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/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 > >]' @@ -273824,7 +273737,7 @@ 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/apps/alf/alf.cpp:45: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.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) | ^~~~~~~~ @@ -273832,10 +273745,11 @@ /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_ = 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: 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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273854,22 +273768,45 @@ /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_ = 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 > >]' +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 '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/apps/bs_tools/bisar.h:157:26: required from 'int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]' + 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:1168:17: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' + 1168 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); + | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/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/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/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/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]' +/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/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); | ^~~~~~~~~~~~~~~ @@ -273879,22 +273816,22 @@ /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_ = 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_ = 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, TagList, TagList, TagList, 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 > >]' 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]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/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/alf/alf.cpp:164:13: required from here - 164 | open(seqFile, toCString(inFile)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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); | ^~~~~~~~~~~~~~~ @@ -273904,6 +273841,28 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/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/apps/bs_tools/bisar.h:157:26: required from 'int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]' + 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:1168:17: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' + 1168 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); + | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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/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_) + | ^~~~~~~~ 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]' @@ -273930,6 +273889,65 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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)); @@ -273941,9 +273959,15 @@ /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); | ^~~~~~~~~~~~~~~ @@ -273964,9 +273988,15 @@ /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); | ^~~~~~~~~~~~~~~ @@ -273987,9 +274017,15 @@ /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); | ^~~~~~~~~~~~~~~ @@ -274120,261 +274156,6 @@ /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 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/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, @@ -274774,6 +274555,261 @@ /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, + 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/apps/bs_tools/casbar_realignment.h:6, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/casbar.cpp:73: /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/casbar_score.h:42:57: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -275745,19 +275781,6 @@ /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/four2three -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/four2three.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -ffloat-store -ffp-contract=off -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/four2three.dir/link.d CMakeFiles/four2three.dir/four2three.cpp.o -o ../../bin/four2three -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target four2three -make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/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/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=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Building CXX object apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.1.10\" -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/dfi/CMakeFiles/dfi.dir/dfi.cpp.o -MF CMakeFiles/dfi.dir/dfi.cpp.o.d -o CMakeFiles/dfi.dir/dfi.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi/dfi.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, @@ -275970,6 +275993,19 @@ /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/four2three +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/four2three.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -ffloat-store -ffp-contract=off -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/four2three.dir/link.d CMakeFiles/four2three.dir/four2three.cpp.o -o ../../bin/four2three -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target four2three +make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/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/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=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Building CXX object apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.1.10\" -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/dfi/CMakeFiles/dfi.dir/dfi.cpp.o -MF CMakeFiles/dfi.dir/dfi.cpp.o.d -o CMakeFiles/dfi.dir/dfi.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi/dfi.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, @@ -277151,6 +277187,257 @@ 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.dir/fiona.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/c++ -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.dir/fiona.cpp.o -MF CMakeFiles/fiona.dir/fiona.cpp.o.d -o CMakeFiles/fiona.dir/fiona.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.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/include/seqan/pipe.h:41, @@ -277614,257 +277901,6 @@ /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; - | ^~~~~~ /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 | ^~~~~~~~~~~~~~~ @@ -277918,6 +277954,8 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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 /build/reproducible-path/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())) @@ -278086,6 +278124,15 @@ /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) | ^~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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' /build/reproducible-path/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())) @@ -278114,6 +278161,8 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 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 /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<> >, 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, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -278632,6 +278681,88 @@ /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/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 + | ^~~~~~~~~~~~~~~ /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 >, long 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 >, 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>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -278726,6 +278857,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 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/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/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_); @@ -278890,6 +279047,44 @@ /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 '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(); @@ -279295,165 +279490,6 @@ /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) | ^~~~~~ -[ 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: @@ -281468,27 +281504,6 @@ /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; - | ^~~~~~ [ 95%] Linking CXX executable ../../bin/fiona_illumina cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/fiona_illumina.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/fiona_illumina.dir/link.d CMakeFiles/fiona_illumina.dir/fiona.cpp.o -o ../../bin/fiona_illumina -lrt -lz -lbz2 @@ -281598,257 +281613,27 @@ /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: +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: 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 +/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 = 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: 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: 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, @@ -282120,6 +281905,257 @@ /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 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/fx_bam_coverage 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_bam_coverage.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_bam_coverage.dir/link.d CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -o ../../bin/fx_bam_coverage -lrt -lz -lbz2 @@ -283829,17 +283865,6 @@ /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 = 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; - | ^~~~~~ /build/reproducible-path/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)); @@ -283892,6 +283917,17 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +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; + | ^~~~~~ [ 95%] Linking CXX executable ../../bin/gustaf_mate_joining cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf && /usr/bin/cmake -E cmake_link_script CMakeFiles/gustaf_mate_joining.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/gustaf_mate_joining.dir/link.d CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -o ../../bin/gustaf_mate_joining -lrt -lz -lbz2 @@ -284654,6 +284690,27 @@ /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; + | ^~~~~~ [ 95%] Linking CXX executable ../../bin/gustaf cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf && /usr/bin/cmake -E cmake_link_script CMakeFiles/gustaf.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/gustaf.dir/link.d CMakeFiles/gustaf.dir/gustaf.cpp.o -o ../../bin/gustaf -lrt -lz -lbz2 @@ -284790,6 +284847,24 @@ /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); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 @@ -284926,45 +285001,6 @@ /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 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, @@ -285207,11 +285243,13 @@ /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/insegt +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt && /usr/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 [ 95%] Linking CXX executable ../../bin/mason_genome 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_genome.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_genome.dir/link.d CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../bin/mason_genome -lrt -lz -lbz2 libmason_sim.a -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/insegt.dir/link.d CMakeFiles/insegt.dir/insegt.cpp.o -o ../../bin/insegt -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target mason_genome +[ 95%] Built target insegt make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" @@ -285220,6 +285258,17 @@ 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_methylation.dir/mason_methylation.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_methylation.dir/mason_methylation.cpp.o -MF CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d -o CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.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/mason_genome.dir/link.d CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../bin/mason_genome -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' +[ 95%] Built target mason_genome +make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[4]: 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.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_frag_sequencing.dir/mason_frag_sequencing.cpp.o -MF CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d -o CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.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, @@ -285315,6 +285364,108 @@ /usr/include/c++/14/bits/stl_function.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/apps/mason2/mason_frag_sequencing.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/apps/mason2/mason_frag_sequencing.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/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/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 @@ -285354,6 +285505,84 @@ /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/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/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: @@ -285460,6 +285689,29 @@ /usr/include/c++/14/bits/stl_function.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/mason2/methylation_levels.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.cpp:45: +/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: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 @@ -285486,6 +285738,44 @@ /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/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: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 > @@ -285535,6 +285825,32 @@ /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/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: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 > @@ -285673,454 +285989,6 @@ /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: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/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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 95%] Linking CXX executable ../../bin/insegt -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt && /usr/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/insegt.dir/link.d CMakeFiles/insegt.dir/insegt.cpp.o -o ../../bin/insegt -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target insegt -make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[4]: 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[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.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_frag_sequencing.dir/mason_frag_sequencing.cpp.o -MF CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d -o CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.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/mason2/mason_frag_sequencing.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/apps/mason2/mason_frag_sequencing.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/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/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/sequencing.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.cpp:45: -/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 > @@ -286170,6 +286038,20 @@ /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/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: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 > @@ -286329,6 +286211,160 @@ /usr/include/c++/14/bits/stl_function.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: +/build/reproducible-path/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): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/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 > >]' @@ -286643,6 +286679,7 @@ /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 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> @@ -286650,6 +286687,7 @@ /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/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 @@ -286663,6 +286701,17 @@ /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/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: @@ -287002,6 +287051,98 @@ /usr/include/c++/14/bits/stl_function.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 + | ^~~~~~~~~~~~~~ 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]' @@ -287094,6 +287235,14 @@ /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/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/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]' @@ -287165,119 +287314,6 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 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' -[ 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/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, @@ -287799,11 +287835,11 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 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 +[ 97%] Linking CXX executable ../../bin/mason_materializer +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_materializer.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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_materializer.dir/link.d CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -o ../../bin/mason_materializer -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 +[ 97%] Built target mason_materializer make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" @@ -287812,8 +287848,6 @@ 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_simulator.dir/mason_simulator.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_simulator.dir/mason_simulator.cpp.o -MF CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o.d -o CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp -[ 97%] Linking CXX executable ../../bin/mason_materializer -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_materializer.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, @@ -287896,17 +287930,6 @@ /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_materializer.dir/link.d CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -o ../../bin/mason_materializer -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_materializer -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/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 @@ -287921,6 +287944,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 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' 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, @@ -287933,6 +287960,12 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_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 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> @@ -287940,6 +287973,9 @@ /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' +[ 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/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 @@ -287999,101 +288035,6 @@ /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/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/mason2/methylation_levels.h:38, @@ -288382,120 +288323,113 @@ /usr/include/c++/14/bits/stl_function.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 - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.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, - 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> - | ^~~~~~~~~~~~~~ +In file included from /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/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: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/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, - 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 - | ^~~~~~~~~~~~~~ +/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/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : 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/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : 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 + | ^~~~~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.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 + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -288525,67 +288459,22 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -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 - | ^~~~~~~~~~~~~~ +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/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/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 | ^~~~~~~~~~~~~~ @@ -288636,158 +288525,16 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -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< - | ^~~~~~~~~~~~~~~ +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/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 - | ^~~~~~~~~~~~~~~ +/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 | ^~~~~~~~~~~~~~~ @@ -288816,38 +288563,6 @@ /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: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/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]' @@ -288874,20 +288589,6 @@ /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/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/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)); @@ -289214,6 +288915,341 @@ /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/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 { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/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 @@ -289919,6 +289955,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 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 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 @@ -289926,6 +289964,17 @@ /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/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_]': @@ -290004,19 +290053,6 @@ /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) | ^~~~~~~~ -[ 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/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/micro_razers/../razers/razers.h:28, @@ -290522,17 +290558,6 @@ | ^~~~~~~~~~~~~~~ [ 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 > >]' @@ -290559,6 +290584,15 @@ /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 -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' /build/reproducible-path/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())) @@ -290581,6 +290615,8 @@ /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/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 /build/reproducible-path/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())) @@ -290709,84 +290745,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/razers.h:1257:40: note: initializing argument 2 of 'bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, const RazerSOptions&, MicroRNA) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet, Alloc<> >, Owner > >; TSpec = RazerSSpec<>]' 1257 | Segment inf, // potential match genome region | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /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/ngs_roi/roi_plot_thumbnails.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/fstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.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 - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/razers.h: In instantiation of 'bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet, Alloc<> >, Owner > >; TMyersPatterns = String, Alloc<> >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/razers.h:1717:15: required from 'void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index, Alloc<> >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String, Alloc<> >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]' 1717 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) @@ -290816,20 +290774,6 @@ /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) : | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -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/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)); @@ -291433,6 +291377,98 @@ /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/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.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/fstream:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.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, @@ -292077,6 +292113,19 @@ /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 '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/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 { @@ -292223,19 +292272,6 @@ /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 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] @@ -292257,6 +292293,8 @@ /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, @@ -292508,23 +292546,13 @@ /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 [ 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 -[ 97%] Building CXX object apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.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/bam2roi.dir/roi_builder.cpp.o -MF CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d -o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_builder.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/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 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target micro_razers -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 +[ 97%] Building CXX object apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.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/bam2roi.dir/roi_builder.cpp.o -MF CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d -o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_builder.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/roi_io.h:45, @@ -292610,98 +292638,6 @@ /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/ngs_roi/roi_feature_projection.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 - | ^~~~~~~~~~~~~~ -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/ngs_roi/roi_feature_projection.cpp: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 - | ^~~~~~~~~~~~~~~ -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 @@ -292749,6 +292685,14 @@ /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 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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 @@ -292793,20 +292737,6 @@ /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_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/ngs_roi/roi_builder.h:41: @@ -292816,26 +292746,6 @@ /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/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/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> @@ -292909,14 +292819,6 @@ /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/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: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 @@ -293144,50 +293046,6 @@ /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/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 @@ -293195,29 +293053,101 @@ /usr/include/c++/14/bits/stl_function.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): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /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/ngs_roi/roi_feature_projection.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 + | ^~~~~~~~~~~~~~ +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/ngs_roi/roi_feature_projection.cpp: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 + | ^~~~~~~~~~~~~~~ +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/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())) @@ -293234,9 +293164,12 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ @@ -293270,9 +293203,115 @@ /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_]' +/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, + 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) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -293282,15 +293321,18 @@ /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/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/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/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())) @@ -293307,12 +293349,9 @@ /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): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ @@ -293346,21 +293385,18 @@ /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: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/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]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/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/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/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; | ^~ @@ -293372,18 +293408,13 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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 +[ 98%] 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 In file included from /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_lib.cpp:37: + 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: /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 | ^~~~~~~~~~~~~~ @@ -293391,12 +293422,9 @@ 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: + 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: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -293467,11 +293495,7 @@ /usr/include/c++/14/bits/stl_function.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 | ^~~~~~~~~~~~~~ @@ -293479,7 +293503,12 @@ 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/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> | ^~~~~~~~~~~~~~ @@ -293507,16 +293536,14 @@ 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: + 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, - 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: +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 | ^~~~~~~~~~~~~~~ @@ -293560,7 +293587,8 @@ /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/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())) @@ -293578,7 +293606,7 @@ 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/modifier.h:47: + 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) | ^~~~~~~~ @@ -293698,9 +293726,8 @@ /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 +[ 98%] 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 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, @@ -293741,13 +293768,12 @@ /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 In file included from /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 | ^~~~~~~~~~~~~~ @@ -293757,7 +293783,7 @@ 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 | ^~~~~~~~~~~~~~ @@ -293841,7 +293867,7 @@ 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> | ^~~~~~~~~~~~~~ @@ -293920,8 +293946,7 @@ /usr/include/c++/14/bits/stl_function.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/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())) @@ -293998,18 +294023,23 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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/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 -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' -[100%] Built target pair_align_lib -[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 +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 +[ 98%] Linking CXX executable ../../bin/roi_feature_projection +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/roi_feature_projection.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/roi_feature_projection.dir/link.d CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../bin/roi_feature_projection -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target roi_feature_projection In file included from /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/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_lib.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 | ^~~~~~~~~~~~~~ @@ -294017,9 +294047,12 @@ 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/ngs_roi/project_interval.h:38: + 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 | ^~~~~~~~~~~~~~ @@ -294090,7 +294123,11 @@ /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/file.h:92: +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 | ^~~~~~~~~~~~~~ @@ -294098,12 +294135,7 @@ 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/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> | ^~~~~~~~~~~~~~ @@ -294117,14 +294149,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_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/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Building CXX object apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /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/CMakeFiles/pair_align.dir/pair_align.cpp.o -MF CMakeFiles/pair_align.dir/pair_align.cpp.o.d -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_align.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 @@ -294139,14 +294163,16 @@ 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/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: +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 | ^~~~~~~~~~~~~~~ @@ -294208,7 +294234,7 @@ 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) | ^~~~~~~~ @@ -294267,6 +294293,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: 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 +/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 +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_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/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[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[100%] Building CXX object apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /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/CMakeFiles/pair_align.dir/pair_align.cpp.o -MF CMakeFiles/pair_align.dir/pair_align.cpp.o.d -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_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/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -294524,11 +294565,6 @@ /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 executable ../../bin/roi_feature_projection -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/roi_feature_projection.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -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/roi_feature_projection.dir/link.d CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../bin/roi_feature_projection -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target roi_feature_projection [100%] Linking CXX executable ../../bin/pair_align cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_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/pair_align.dir/link.d CMakeFiles/pair_align.dir/pair_align.cpp.o -o ../../bin/pair_align lib/libpair_align_lib.a -lrt -lz -lbz2 @@ -294544,7 +294580,7 @@ # 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 -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "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 @@ -294552,7027 +294588,7027 @@ make[2]: 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 -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.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/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 /build/reproducible-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_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 -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend make[3]: Entering 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/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 /build/reproducible-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_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend +make[3]: Entering 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/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 -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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.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_lcs.dir/DependInfo.cmake "--color=" +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_local.dir/DependInfo.cmake "--color=" -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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' +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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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_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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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_global_0001.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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -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 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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' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/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 -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.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_1101.dir/DependInfo.cmake "--color=" -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_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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_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_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_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_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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build +Consolidate compiler generated dependencies of target pair_align_local +Consolidate compiler generated dependencies of target pair_align_global_0101 +Consolidate compiler generated dependencies of target pair_align_global_1010 +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 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' -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". 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"/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". +Consolidate compiler generated dependencies of 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 'apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build'. -Consolidate compiler generated dependencies of target pair_align_global_0101 -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[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_local.dir/build'. -make[3]: Leaving directory 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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_1111 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_global_1111.dir/build'. +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 pair_align_global_1100 +[ 0%] Built target seqan_library 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_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.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_1001.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_global_0010.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_1101 +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'. 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_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_0100.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_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_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.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_lcs.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_local.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_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 '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 -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[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_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build +Consolidate compiler generated dependencies of target pair_align_global_1110 +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_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]: 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_1010.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lcs.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_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.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_1100.dir/build'. +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]: 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[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 -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[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]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1001.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_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_0111.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_global_1011.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_0000.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_global_1100.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target pair_align_local -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build'. +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' -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]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build'. +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' -[ 0%] Built target pair_align_lcs +[ 0%] Built target pair_align_global_0001 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' -[ 0%] Built target pair_align_global_0011 -[ 0%] Built target pair_align_global_1111 -[ 0%] Built target pair_align_global_0001 [ 0%] Built target pair_align_global_0100 +[ 0%] Built target pair_align_local +[ 0%] Built target pair_align_global_0101 [ 0%] Built target pair_align_global_0010 -[ 0%] Built target pair_align_global_1001 +[ 0%] Built target pair_align_global_0011 +[ 0%] Built target pair_align_global_1000 make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/depend -[ 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 -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 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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_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_simd_global_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.dir/DependInfo.cmake "--color=" -[ 1%] Built target pair_align_global_1100 -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 -[ 1%] Built target pair_align_global_0000 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_global_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_global_equal_length_sse4.dir/DependInfo.cmake "--color=" 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 -Consolidate compiler generated dependencies of target mason_sim -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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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' +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 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 1%] Built target pair_align_global_1011 -[ 1%] Built target pair_align_global_0111 +[ 0%] Built target pair_align_lcs +[ 0%] Built target pair_align_global_0000 +[ 0%] Built target pair_align_global_1100 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 +[ 0%] Built target pair_align_global_1101 +[ 0%] Built target pair_align_global_0111 +[ 0%] Built target pair_align_global_1010 +[ 0%] 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_sse4.dir/DependInfo.cmake "--color=" -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_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/depend -[ 1%] Built target pair_align_global_1010 -[ 1%] Built target pair_align_global_0101 make[3]: 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/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 /build/reproducible-path/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 -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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 1%] Built target pair_align_global_0110 +[ 1%] Built target pair_align_global_1001 +[ 1%] Built target pair_align_global_1011 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 1%] Built target pair_align_global_1110 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 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 -[ 1%] Built target pair_align_global_1000 -[ 1%] Built target pair_align_global_1110 -[ 1%] Built target pair_align_global_1101 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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -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_variable_length_avx2.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=" +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". +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_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_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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.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_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -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_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 -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend 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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend +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_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". -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" 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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" 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 -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.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' -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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.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". +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length 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_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". -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/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". -make[3]: Entering 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.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.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.dir/DependInfo.cmake "--color=" -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". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend +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 +Consolidate compiler generated dependencies of target mason_sim +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/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.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/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.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_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". -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +Consolidate compiler generated dependencies of target test_align_simd_global_equal_length Consolidate compiler generated dependencies of target test_align_simd_local_equal_length +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 +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/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_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_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/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/depend +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_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". +make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build +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[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 +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/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 -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_avx2.dir/DependInfo.cmake "--color=" -make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.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_algorithm_sse4.dir/DependInfo.cmake "--color=" +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 +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_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[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_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". 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]: 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_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_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_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/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 -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build +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_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/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build +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_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_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_equal_length_avx2 -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_sim.dir/build'. +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". +Consolidate compiler generated dependencies of target test_align 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_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[3]: Leaving 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: 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' -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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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' 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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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". -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 -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". -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_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_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". 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_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 -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build -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 -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 -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_sse4 -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend +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". +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_sse4 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]: 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/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' -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 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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build'. +Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 +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 +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_global_equal_length_sse4 +Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_sse4 +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_avx2.dir/build'. -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_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 'tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build'. +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_avx2 Consolidate compiler generated dependencies of target test_align_extend +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_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_simd_local_equal_length_sse4 -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". +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/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[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/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 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 'apps/mason2/CMakeFiles/mason_sim.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_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_local_variable_length_avx2 -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_avx2 -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". -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[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_sse4.dir/build.make 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' -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 -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 -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_avx2 -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_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". +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 -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build +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 +Consolidate compiler generated dependencies of target test_align_parallel_interface +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_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 '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' -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_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". -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_sse4 -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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_sse4.dir/build'. -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' -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 -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_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". +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 +[ 1%] Built target test_align_simd_local_variable_length +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build +[ 1%] Built target test_align_simd_local_equal_length +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[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]: 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' -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_global_equal_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_algorithm_sse4 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'. +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' -Consolidate compiler generated dependencies of target test_align_parallel_interface_sse4 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/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[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 -Consolidate compiler generated dependencies of target test_align_parallel_interface Consolidate compiler generated dependencies of target test_align_parallel_interface_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_parallel_data_structures -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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[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[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_avx2 -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_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build -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_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.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_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 -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build -Consolidate compiler generated dependencies of 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/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' 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]: 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 -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_align_split -[ 2%] Built target mason_sim -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[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' -[ 2%] Built target test_align_simd_global_variable_length 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_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build +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 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'. +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 -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build -[ 2%] Built target test_align_simd_global_equal_length +[ 1%] Built target test_align_simd_global_variable_length +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' -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' -[ 2%] Built target test_align_simd_global_equal_length_avx2 -[ 2%] Built target test_align_simd_global_equal_length_sse4 -[ 2%] Built target test_align_simd_local_equal_length +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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 1%] Built target test_align_simd_global_equal_length_avx2 +make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend +[ 2%] Built 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_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=" [ 2%] Built target test_align -make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/build +[ 2%] Built target test_align_simd_global_equal_length +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.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_avx2.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]: 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[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]: 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]: 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target test_align_simd_local_equal_length_sse4 -[ 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' -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/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_global_variable_length_sse4 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' -[ 4%] Built target test_align_parallel_algorithm -[ 4%] Built target test_align_parallel_interface -[ 4%] Built target test_align_simd_local_variable_length_avx2 -[ 5%] Built target test_align_simd_local_variable_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/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 -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend -make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend -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 make[3]: Entering 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/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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 2%] Built target test_align_simd_global_variable_length_avx2 +[ 2%] 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend +[ 4%] Built target test_align_simd_local_variable_length_sse4 +[ 4%] Built target test_align_simd_global_equal_length_sse4 +[ 4%] Built target test_align_simd_global_variable_length_sse4 +[ 5%] Built target test_align_parallel_algorithm +[ 4%] Built target test_align_extend +[ 4%] Built target test_align_simd_local_variable_length_avx2 +[ 5%] Built target test_align_parallel_data_structures +[ 5%] Built target test_align_simd_local_equal_length_sse4 +make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_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/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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.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_exception.dir/DependInfo.cmake "--color=" -[ 5%] Built target test_align_simd_global_variable_length_avx2 -make[3]: Entering 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 -[ 5%] 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' make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.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_metaprogramming.dir/DependInfo.cmake "--color=" -[ 5%] Built target test_align_parallel_interface_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_fundamental.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_concept.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/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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 -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/depend make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/depend make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 5%] Built target test_align_extend make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend -[ 5%] Built target test_align_parallel_algorithm_avx2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 6%] Built target test_align_profile +[ 5%] Built target test_align_parallel_interface_sse4 +make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend +[ 5%] Built target test_align_parallel_interface +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". +[ 5%] Built target test_align_parallel_interface_avx2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend -[ 6%] Built target test_align_parallel_data_structures -[ 6%] Built target test_align_parallel_interface_avx2 -make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 6%] Built target test_align_parallel_algorithm_sse4 -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 -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend +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/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". +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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". -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_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". -[ 6%] Built target test_align_split -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". -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 -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend -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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend +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". +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". +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". +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". +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". +Consolidate compiler generated dependencies of target test_align_parallel_algorithm_avx2 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". -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". 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/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". -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 -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.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". -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_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/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]: 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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend -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". -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 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_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/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/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=" -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". -Consolidate compiler generated dependencies of target test_arg_parse_version_check -Consolidate compiler generated dependencies of target test_basic_alphabet -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_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build +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/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". +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". +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". +Consolidate compiler generated dependencies of target test_align_parallel_algorithm_sse4 Consolidate compiler generated dependencies of target test_basic_metaprogramming +Consolidate compiler generated dependencies of target test_align_split +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_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". +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". +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". +Consolidate compiler generated dependencies of target test_arg_parse_version_check make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/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/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". 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 -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.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/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[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/build +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_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 -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[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/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". -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". -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". +Consolidate compiler generated dependencies of target test_basic_exception +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.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/build +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". +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_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 -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_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". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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". +Consolidate compiler generated dependencies of target test_align_profile Consolidate compiler generated dependencies of target test_basic_math -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/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/depend +Consolidate compiler generated dependencies of target test_basic_parallelism 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 -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build +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' -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". +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' +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make 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 -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/build Consolidate compiler generated dependencies of target test_basic_aggregate +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_concept 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_basic_fundamental +make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/build +Consolidate compiler generated dependencies of target test_bam_io +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build +Consolidate compiler generated dependencies of target test_basic_allocator +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_split/CMakeFiles/test_align_split.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/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=" -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/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' -Consolidate compiler generated dependencies of target test_bam_io -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_fundamental +Consolidate compiler generated dependencies of target test_basic_smart_pointer +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' -Consolidate compiler generated dependencies of target test_basic_parallelism -Consolidate compiler generated dependencies of target test_arg_parse 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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make 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_basic_exception -Consolidate compiler generated dependencies of target test_basic_concept -Consolidate compiler generated dependencies of target test_basic_allocator Consolidate compiler generated dependencies of target test_alignment_free -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/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". -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". +Consolidate compiler generated dependencies of target test_basic_alphabet make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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/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". 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]: 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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make 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' -make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build +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". make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make 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 -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make 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' -Consolidate compiler generated dependencies of target test_basic_proxy 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]: 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 -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 -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 -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 -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/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". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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_fundamental.dir/build'. +Consolidate compiler generated dependencies of target test_basic_proxy +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/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.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'. +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/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_parallelism.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/bam_io/CMakeFiles/test_bam_io.dir/build'. +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' -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_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". 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/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_concept.dir/build'. +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[3]: Entering 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[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]: 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' -Consolidate compiler generated dependencies of target test_basic_container -[ 6%] Built target test_arg_parse_version_check -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[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 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'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -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/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". -[ 6%] Built target test_basic_alphabet -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[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]: 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' +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' 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -Consolidate compiler generated dependencies of target test_basic_iterator +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 -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build +make[3]: Nothing to be done for '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 -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/build +[ 5%] Built target test_arg_parse_version_check +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' +[ 5%] Built target test_align_parallel_algorithm_sse4 +[ 5%] Built target test_align_parallel_algorithm_avx2 +[ 5%] Built target test_basic_exception +[ 5%] Built target test_basic_metaprogramming +[ 5%] Built target test_arg_parse +[ 5%] Built target test_basic_concept +[ 5%] Built target test_align_split +[ 5%] Built target test_basic_parallelism +[ 5%] Built target test_basic_fundamental +[ 6%] Built target test_basic_aggregate +[ 6%] Built target test_basic_alphabet +[ 6%] Built target test_basic_allocator +make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend +[ 6%] Built target test_basic_math +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -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 +[ 6%] Built target test_alignment_free +make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/depend make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/depend -Consolidate compiler generated dependencies of target test_bed_io +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Built target test_align_profile 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/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 -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/depend -[ 6%] Built target test_arg_parse make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 7%] Built target test_bam_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/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/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.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/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_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.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/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=" +make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -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/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 -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 8%] Built target test_basic_smart_pointer make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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 -[ 6%] 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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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]: Entering 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/depend -make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend -make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend -Consolidate compiler generated dependencies of target test_consensus -[ 6%] Built target test_basic_metaprogramming +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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 +make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend +make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.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=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend -[ 6%] Built target test_basic_concept -[ 6%] Built target test_bam_io -Consolidate compiler generated dependencies of target test_blast -[ 7%] Built target test_basic_smart_pointer make[3]: Entering 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/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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 7%] Built target test_basic_parallelism -[ 7%] Built target test_basic_math -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 6%] Built target test_alignment_free -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_utils.dir/DependInfo.cmake "--color=" -make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build -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". -make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/build -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 -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -[ 8%] Built target test_basic_iterator -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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/build -[ 9%] Built target test_basic_aggregate 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_basic_fundamental +[ 8%] 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/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_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.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/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=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 8%] Built target test_basic_container make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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/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/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". -[ 9%] Built target test_basic_allocator -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". -[ 9%] Built target test_basic_proxy -Consolidate compiler generated dependencies of target test_find -make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_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/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/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". -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". -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' +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' -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 -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.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_crosscompare_dna_dfi.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/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/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/depend -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' +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/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/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/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/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_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/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". +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/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/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_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". +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/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". -[ 9%] Built target test_basic_container -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[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' -Consolidate compiler generated dependencies of target test_gff_io -Consolidate compiler generated dependencies of target test_consensus_v2 -Consolidate compiler generated dependencies of target test_graph_types_property_map -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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_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_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_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/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/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_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/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_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". +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/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". +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/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/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". +Consolidate compiler generated dependencies of target test_basic_iterator +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_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". +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". Consolidate compiler generated dependencies of target test_graph_types_utils -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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". -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_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". +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -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_bed_io +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/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". +Consolidate compiler generated dependencies of target test_blast +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[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 +Consolidate compiler generated dependencies of target test_graph_types_property_map +Consolidate compiler generated dependencies of target test_graph_algorithms 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/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build +make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build +make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.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/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/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.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_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". -make[3]: Entering 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 -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". -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_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". -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[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/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_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.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/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_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend -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". -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". +Consolidate compiler generated dependencies of target test_consensus +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". Consolidate compiler generated dependencies of target test_graph_align +Consolidate compiler generated dependencies of target test_find +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend +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' Consolidate compiler generated dependencies of target test_graph_types_iterators -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_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.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_shapes.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/find/CMakeFiles/test_find.dir/build'. +Consolidate compiler generated dependencies of target test_graph_types_derived +Consolidate compiler generated dependencies of target test_graph_msa make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: 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_index_crosscompare_dna_dfi 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[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_gff_io +make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.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/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/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 -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend -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 -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend 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 -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.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 +Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi +make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.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 +Consolidate compiler generated dependencies of target test_index_crosscompare_dna +Consolidate compiler generated dependencies of target test_graph_types_types +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make 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' +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/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.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_property_map.dir/build'. -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[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.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.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_index_base.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_graph_types_types -[ 9%] Built target test_bed_io -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_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.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". -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]: 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' +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' 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'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_fm.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/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/graph_types/CMakeFiles/test_graph_types_utils.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_fm_rank_dictionary.dir/DependInfo.cmake "--color=" +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' -Consolidate compiler generated dependencies of target test_index_crosscompare_dna_dfi -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/depend -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". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -Consolidate compiler generated dependencies of target test_graph_msa -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 -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.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/consensus_v2/CMakeFiles/test_consensus_v2.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' -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". +Consolidate compiler generated dependencies of target test_index_crosscompare_char +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Nothing to be done for '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' -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/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build -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[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' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_view.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/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 -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.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/graph_align/CMakeFiles/test_graph_align.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' -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[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/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.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_align/CMakeFiles/test_graph_align.dir/build'. +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 -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend -Consolidate compiler generated dependencies of target test_graph_algorithms -Consolidate compiler generated dependencies of target test_index_creation -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_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/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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build +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/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' -[ 9%] Built target test_graph_types_derived -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/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/build -Consolidate compiler generated dependencies of target test_index_qgram -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]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_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 '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[3]: Nothing to be done for 'tests/graph_msa/CMakeFiles/test_graph_msa.dir/build'. +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' +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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 -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build +[ 9%] Built target test_bed_io +[ 9%] Built target test_basic_iterator [ 9%] Built target test_blast [ 9%] Built target test_graph_types_property_map +[ 9%] Built target test_consensus +[ 11%] Built target test_graph_algorithms +[ 11%] Built target test_find +make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/depend +make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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 +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend +[ 11%] Built target test_gff_io +[ 11%] Built target test_graph_align +[ 11%] Built target test_graph_types_iterators +[ 11%] Built target test_graph_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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 11%] Built target test_index_crosscompare_char_dfi +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend +[ 11%] Built target test_graph_types_derived +make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend +[ 11%] Built target test_graph_types_utils +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend +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=" +[ 11%] Built target test_index_crosscompare_dna_dfi +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_bifm.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_vstree.dir/DependInfo.cmake "--color=" +[ 12%] Built target test_graph_types_types make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend -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_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]: 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 +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' -Consolidate compiler generated dependencies of target test_index_crosscompare_char -[ 9%] Built target test_consensus -make[3]: Nothing to be done for 'tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build'. -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]: 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". -[ 9%] Built target test_graph_types_utils cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 13%] Built target test_index_crosscompare_dna +make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.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_creation.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/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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.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_swift.dir/DependInfo.cmake "--color=" +[ 13%] Built target test_index_creation +[ 13%] Built target test_consensus_v2 +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 13%] Built target test_index_crosscompare_char +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". +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/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.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". +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_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_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_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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". +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_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/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". 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". -[ 10%] Built target test_find +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". +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_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_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_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". +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_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". -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build -Consolidate compiler generated dependencies of target test_index_crosscompare_dna +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_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_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". +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_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/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/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/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/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/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". +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/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". Consolidate compiler generated dependencies of target test_index_sa_bwtwalk -[ 10%] Built target test_consensus_v2 -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". -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". -Consolidate compiler generated dependencies of target test_index_fm -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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_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". +Consolidate compiler generated dependencies of target test_index_fm_sparse_string 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.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build -Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi +Consolidate compiler generated dependencies of target test_index_shapes +Consolidate compiler generated dependencies of target test_index_drawing +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_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]: 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'. +Consolidate compiler generated dependencies of target test_index_vstree 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_bifm -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". +Consolidate compiler generated dependencies of target test_index_fm +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.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 +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". +Consolidate compiler generated dependencies of target test_basic_observable +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 -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build -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". -make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build -make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/build -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". -Consolidate compiler generated dependencies of target test_index_drawing -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/build -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". -[ 10%] Built target test_graph_msa Consolidate compiler generated dependencies of target test_index_fm_rank_dictionary -Consolidate compiler generated dependencies of target test_index_shapes -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'. +Consolidate compiler generated dependencies of target test_index_base +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Built target test_graph_types_iterators -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_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". 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 -Consolidate compiler generated dependencies of target test_index_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 -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build +Consolidate compiler generated dependencies of target test_index_repeats +Consolidate compiler generated dependencies of target test_find_backtracking 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]: 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' -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". -[ 10%] Built target test_gff_io +Consolidate compiler generated dependencies of target test_index_swift +Consolidate compiler generated dependencies of target test_index_view make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_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". -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_fm_rank_dictionary.dir/build.make 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' 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]: 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/index/CMakeFiles/test_index_base.dir/build.make 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/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build -[ 10%] Built target test_graph_align +make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.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_bifm.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_shapes.dir/build'. +Consolidate compiler generated dependencies of target test_journaled_set +make[3]: Leaving 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/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_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/build +Consolidate compiler generated dependencies of target test_index_finder +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_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 +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 -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/build +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.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'. +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' +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_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". +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build +Consolidate compiler generated dependencies of target test_journaled_string_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 'tests/index/CMakeFiles/test_index_crosscompare_char.dir/build'. +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' +Consolidate compiler generated dependencies of target test_find2_index_approx 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]: 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' -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". -Consolidate compiler generated dependencies of target test_index_vstree -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". -Consolidate compiler generated dependencies of target test_index_base +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make 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[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_view.dir/build'. +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' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_shapes.dir/build'. +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' -[ 10%] Built target test_index_crosscompare_dna_dfi -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/build -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.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_fm_rank_dictionary.dir/build'. +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' -[ 11%] Built target test_graph_algorithms -make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/depend -Consolidate compiler generated dependencies of target test_find_backtracking -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_find2_index_approx.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_index_finder +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 -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/build +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[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]: 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_repeats.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend +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[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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_fm_sparse_string -[ 12%] Built target test_graph_types_types make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 13%] Built target test_index_crosscompare_dna -[ 13%] Built target test_index_creation +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_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' +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/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend -[ 13%] Built target test_index_qgram -[ 13%] Built target test_index_crosscompare_char +Consolidate compiler generated dependencies of target test_delta_map make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_find2_index_approx.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_find_backtracking.dir/build'. +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' -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 +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build +[ 13%] Built target test_index_qgram +[ 15%] Built target test_index_fm_sparse_string +[ 15%] Built target test_index_drawing +[ 15%] Built target test_index_fm_rank_dictionary +[ 15%] Built target test_index_sa_bwtwalk +[ 15%] Built target test_index_shapes +[ 15%] Built target test_index_fm +[ 15%] Built target test_index_bifm +[ 15%] Built target test_index_swift +[ 15%] Built target test_index_vstree +[ 15%] Built target test_find_backtracking +[ 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/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=" -[ 13%] Built target test_index_drawing +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' +[ 16%] Built target test_index_base +[ 16%] Built target test_index_repeats 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 -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 -[ 13%] Built target test_index_crosscompare_char_dfi make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_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/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 -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.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/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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.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". +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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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 -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.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/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=" -[ 13%] 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=" -[ 13%] Built target test_index_bifm -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[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 -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/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' +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.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/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=" -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend +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/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=" -[ 13%] Built target test_index_shapes -[ 13%] Built target test_index_vstree -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend -[ 13%] Built 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/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/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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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_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". -make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.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/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=" +[ 16%] Built target test_basic_observable make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend -make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend -[ 13%] Built target test_index_fm_rank_dictionary -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend -make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_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/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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". +make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend +[ 16%] Built target test_index_finder +[ 16%] Built target test_journaled_set +[ 16%] Built target test_find2_index_approx make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend +make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/depend make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/depend 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 -[ 15%] Built target test_index_view -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 15%] Built target test_index_base -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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.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_combination.dir/DependInfo.cmake "--color=" -make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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/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". +[ 16%] Built target test_journaled_string_tree make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend -[ 15%] Built target test_find_backtracking -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend -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/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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 16%] Built target test_delta_map make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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 -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_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/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". -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" 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". +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/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/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/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". +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/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_align_banded_chain_impl.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 -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend -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/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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/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/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". +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". -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_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/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/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". +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/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/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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/depend -make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/depend -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/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=" -[ 15%] Built target test_index_finder +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/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". +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/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/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 -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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/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". -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 -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/depend -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/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=" -[ 16%] Built target test_index_fm_sparse_string -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend +Consolidate compiler generated dependencies of target test_platform +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". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' 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/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/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". -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". -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/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/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/depend -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/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". -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -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/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_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/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". -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/random/CMakeFiles/test_random.dir/link.d" is newer than depends file 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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". -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/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/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_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". -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". -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". -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/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/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". -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/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". -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/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/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". -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_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/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". -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". -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/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". -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/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/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". -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". -Consolidate compiler generated dependencies of target test_journaled_string_tree_find -Consolidate compiler generated dependencies of target test_simd_vector -Consolidate compiler generated dependencies of target test_seeds_seed_diagonal -Consolidate compiler generated dependencies of target test_parallel -Consolidate compiler generated dependencies of target test_simd_vector_sse4 -Consolidate compiler generated dependencies of target test_journaled_set -Consolidate compiler generated dependencies of target test_roi_io -Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface -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_misc Consolidate compiler generated dependencies of target test_random -Consolidate compiler generated dependencies of target test_modifier -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[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/journaled_set/CMakeFiles/test_journaled_set.dir/build.make 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' -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' Consolidate compiler generated dependencies of target test_map -Consolidate compiler generated dependencies of target test_basic_observable -Consolidate compiler generated dependencies of target test_journaled_string_tree -Consolidate compiler generated dependencies of target test_index_swift -Consolidate compiler generated dependencies of target test_rna_io -Consolidate compiler generated dependencies of target test_index_repeats -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". -Consolidate compiler generated dependencies of target test_misc -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build -make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make 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 -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_delta_map -make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/build -Consolidate compiler generated dependencies of target test_seeds_combination +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' -Consolidate compiler generated dependencies of target test_sequence -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build +make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.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_extension.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_parallel make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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/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/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.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_modifier Consolidate compiler generated dependencies of target test_parse_lm -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 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_score Consolidate compiler generated dependencies of target test_journaled_string_tree_traverser -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 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_platform -Consolidate compiler generated dependencies of target test_seeds_seed_chained -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_multiple_translation_units -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' +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". +Consolidate compiler generated dependencies of target test_journaled_string_tree_find +Consolidate compiler generated dependencies of target test_pipe +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[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/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". +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.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_modifier_cyclic_shape 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 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_swift.dir/build.make tests/index/CMakeFiles/test_index_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/misc/CMakeFiles/test_misc.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.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build -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". -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build -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 -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 -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 -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/build -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]: 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/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build +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 +make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.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/parallel/CMakeFiles/test_parallel.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' +Consolidate compiler generated dependencies of target test_realign 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_set/CMakeFiles/test_journaled_set.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 -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' -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 -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.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_repeats.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/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". +make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.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_banded_chain_alignment_interface.dir/build'. +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/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]: 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/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]: Entering 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]: 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' -make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.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.dir/build'. +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/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build -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 -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build +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". 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'. +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' -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build +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". +Consolidate compiler generated dependencies of target test_roi_io +Consolidate compiler generated dependencies of target test_multiple_translation_units +Consolidate compiler generated dependencies of target test_reduced_aminoacid +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/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build'. +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 -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/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.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[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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_basic_observable.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_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build +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/platform/CMakeFiles/test_platform.dir/build'. +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/misc/CMakeFiles/test_misc.dir/build'. +Consolidate compiler generated dependencies of target test_rna_io +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/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make 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/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build'. +make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/build +Consolidate compiler generated dependencies of target test_score +make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/build +[ 16%] Built target test_misc +make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend 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/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_global_chaining.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend +[ 16%] Built target test_modifier +Consolidate compiler generated dependencies of target test_seeds_combination +[ 17%] Built target test_map +[ 17%] Built target test_platform +[ 17%] Built target test_parallel +[ 17%] Built target test_modifier_cyclic_shape +[ 17%] Built target test_pipe 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/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 -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make 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' -make[3]: Nothing to be done for 'tests/realign/CMakeFiles/test_realign.dir/build'. +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' +[ 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/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' +[ 18%] Built target test_random +Consolidate compiler generated dependencies of target test_seeds_extension 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/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.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_seed_base.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend +[ 18%] Built target test_journaled_string_tree_traverser +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 -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend +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_chained.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_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=" +[ 18%] Built target test_realign +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend +[ 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/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/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 -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.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_combination.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/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". 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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_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". +[ 18%] Built target test_roi_io +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". +[ 18%] Built target test_reduced_aminoacid +[ 18%] Built target test_multiple_translation_units +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". +[ 19%] Built target test_rna_io +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_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/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". +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". +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". +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_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 -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/depend +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/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/depend +make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/depend +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". +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/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 -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/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/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=" +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[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/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build -Consolidate compiler generated dependencies of target test_pipe -Consolidate compiler generated dependencies of target test_seeds_extension -Consolidate compiler generated dependencies of target test_seeds_seed_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/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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.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". +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". Consolidate compiler generated dependencies of target test_seeds_global_chaining -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' -Consolidate compiler generated dependencies of target test_seeds_seed_set_base -Consolidate compiler generated dependencies of target test_sequence_v2 -make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/build -Consolidate compiler generated dependencies of target test_sequence_journaled -Consolidate compiler generated dependencies of target test_simd_vector_avx2 -Consolidate compiler generated dependencies of target test_stringset_v2 +Consolidate compiler generated dependencies of target test_seeds_seed_base +Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface 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 +[ 19%] Built target test_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/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=" +[ 19%] Built target test_seeds_combination +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build +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". +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". +[ 19%] Built target test_seeds_extension +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 +Consolidate compiler generated dependencies of target test_seeds_seed_chained 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 +Consolidate compiler generated dependencies of target test_seeds_seed_diagonal +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_seq_io +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 +Consolidate compiler generated dependencies of target test_seeds_seed_set_unordered +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[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 +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make 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/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build +make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/depend +Consolidate compiler generated dependencies of target test_seeds_seed_set_base +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/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=" +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_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.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". +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". +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/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". +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +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 -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make 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 -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Built target test_modifier -[ 16%] Built target test_parallel +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 -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build -[ 16%] Built target test_roi_io make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build -[ 16%] Built target test_journaled_set -make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make 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' +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build +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[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'. +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' +Consolidate compiler generated dependencies of target test_sequence 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'. +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' +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build -make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build +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 -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.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' +Consolidate compiler generated dependencies of target test_simd_vector_sse4 +Consolidate compiler generated dependencies of target test_sequence_v2 +Consolidate compiler generated dependencies of target test_stringset_v2 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' -[ 16%] Built target test_index_repeats -make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_extension.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' +Consolidate compiler generated dependencies of target test_sequence_journaled 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]: 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[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' +Consolidate compiler generated dependencies of target test_simd_vector 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/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]: 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_simd_vector_avx2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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[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 -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/build +[ 20%] Built target test_seeds_global_chaining +make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build +make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.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 -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build +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/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". +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". +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 "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/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]: 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]: 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/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build'. +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' -[ 17%] Built target test_seq_io -[ 17%] Built target test_journaled_string_tree_traverser -[ 17%] Built target test_delta_map -[ 17%] Built target test_journaled_string_tree_find -[ 17%] Built target test_seeds_banded_chain_alignment_interface -[ 17%] Built target test_index_swift -[ 17%] Built target test_journaled_string_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 'tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build'. +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' 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]: 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' 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]: 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' -[ 18%] Built target test_basic_observable -[ 18%] Built target test_multiple_translation_units -[ 18%] Built target test_misc -[ 18%] Built target test_modifier_cyclic_shape -[ 18%] Built target test_platform -[ 18%] Built target test_map -[ 18%] Built target test_find2_index_approx -[ 18%] Built target test_random -[ 19%] Built target test_seeds_seed_chained -[ 19%] Built target test_seeds_combination -[ 19%] Built target test_parse_lm -[ 19%] Built target test_realign -[ 19%] Built target test_seeds_seed_diagonal -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 -[ 19%] Built target test_sequence -[ 19%] Built target test_reduced_aminoacid -make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.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/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 -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/depend +[ 20%] Built target test_seeds_banded_chain_alignment_interface +[ 20%] Built target test_seeds_seed_base make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend +Consolidate compiler generated dependencies of target test_simple_intervals_io make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/depend -[ 19%] Built target test_score +[ 20%] Built target test_seeds_seed_chained make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 19%] Built target test_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/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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend -make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +Consolidate compiler generated dependencies of target test_statistics +[ 21%] Built target test_seq_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/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 -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 -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" +[ 21%] Built target test_seeds_seed_set_unordered +[ 21%] Built 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_seeds_seed_diagonal +[ 21%] Built target test_seeds_align_banded_chain_impl +[ 21%] Built target test_sequence_v2 +[ 21%] Built target test_simd_vector +make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/build +[ 21%] Built target test_sequence +[ 21%] Built target test_stringset_v2 +[ 21%] Built target test_sequence_journaled +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". +[ 22%] Built target test_simd_vector_sse4 +[ 22%] Built target test_simd_vector_avx2 +make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/build +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". +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". +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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/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/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". +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/depend -[ 20%] Built target test_stringset_v2 +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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=" -[ 20%] Built target test_pipe -[ 21%] Built target test_simd_vector_sse4 -[ 21%] Built target test_sequence_journaled -[ 21%] Built target test_rna_io -[ 20%] Built target test_seeds_align_banded_chain_impl -[ 21%] Built target test_seeds_seed_base -[ 20%] Built target test_sequence_v2 -[ 21%] Built target test_simd_vector_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/statistics/CMakeFiles/test_statistics.dir/build'. +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/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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/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 -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/depend -[ 20%] Built target test_seeds_seed_set_unordered -[ 21%] Built target test_simd_vector -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend -[ 21%] Built target test_seeds_seed_set_base 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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -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_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend -[ 22%] Built target test_seeds_global_chaining -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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 -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_profile_profile_seq_frac_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend -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 -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.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_align_global_alignment_unbanded.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_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" -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". -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 -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend +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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_basic_enable_if.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_store -Consolidate compiler generated dependencies of target test_simple_intervals_io -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_align_profile_profile_seq_frac_score.dir/DependInfo.cmake "--color=" +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 Consolidate compiler generated dependencies of target test_stream -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". -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/build -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +Consolidate compiler generated dependencies of target test_tabix_io +Consolidate compiler generated dependencies of target test_find_swift 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' +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_dox_basic_simple_type_construction.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_align_split_split_alignment.dir/DependInfo.cmake "--color=" +[ 22%] Built target test_simple_intervals_io make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build -make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend -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 -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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 -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". -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_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_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" -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". -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[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/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_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". -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/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_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 -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build +[ 22%] Built target test_statistics +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 "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". 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". -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_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_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". -Consolidate compiler generated dependencies of 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_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/stream/CMakeFiles/test_stream.dir/build'. +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' make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build -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_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" -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_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_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". +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". +[ 22%] Built target test_store +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_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 -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.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_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". -Consolidate compiler generated dependencies of target test_tabix_io -Consolidate compiler generated dependencies of target test_statistics -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_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". +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". +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_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.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_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend +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_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/depend -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 -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 -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". -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 -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 -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.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_arg_parse_argument_parser.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_find_finder_online.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_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" +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' -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[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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: 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_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". 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". +Consolidate compiler generated dependencies of target test_ucsc_io +Consolidate compiler generated dependencies of target demo_dox_align_align +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". 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]: 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/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". 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". -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_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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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' -make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.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_graph_algorithms_breadth_first_search.dir/DependInfo.cmake "--color=" -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". -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". -Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_score -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". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -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' -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 -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 'demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_unbanded 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_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". -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 -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". -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_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". -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". -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_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_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 -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 "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". 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 demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend -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_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". -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 test_ucsc_io -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". -Consolidate compiler generated dependencies of target demo_dox_align_compute_alignment_stats -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". -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 "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_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". -Consolidate compiler generated dependencies of target test_find_swift -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict 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_basic_metaprogramming_logic make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build -Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_banded -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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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_basic_simple_type_construction +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_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.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 demo_dox_basic_metaprogramming_control -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]: 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 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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_banded +Consolidate compiler generated dependencies of target demo_dox_align_compute_alignment_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_dox_align_profile_profile_seq_score.dir/build'. +make[3]: Nothing to be done for 'tests/ucsc_io/CMakeFiles/test_ucsc_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_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". +[ 22%] Built target test_stream +Consolidate compiler generated dependencies of target demo_dox_align_integrate_align +Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_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' -Consolidate compiler generated dependencies of target demo_dox_basic_zip_iterator 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/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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_vcf_io -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 -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/statistics/CMakeFiles/test_statistics.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_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[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 "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". -Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_alignment -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]: 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 -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". +Consolidate compiler generated dependencies of target demo_blast_blast_in_lowlevel +Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_score +[ 22%] Built target test_find_swift 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'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -[ 22%] Built target test_simple_intervals_io -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]: 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' +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_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 -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/build -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[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_math +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 -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_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.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". make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build -Consolidate compiler generated dependencies of target demo_dox_consensus_consensus_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' -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". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_all_pairs_shortest_path make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_file_in -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' +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". 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 +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". make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build -[ 22%] Built target test_stream -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". -Consolidate compiler generated dependencies of target demo_dox_find_finder_index -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_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". -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". -make[3]: Entering 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 -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_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_align.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 +Consolidate compiler generated dependencies of target demo_dox_align_split_split_alignment +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_store 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_bed_io_UNUSED_bed_stream_read -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' -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 -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend +[ 23%] Built target test_tabix_io 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 -[ 23%] Built target demo_blast_blast_in_lowlevel -make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.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_basic_enable_if.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.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/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' -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 -[ 23%] Built target test_translation -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_find_finder_online -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_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 -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make 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_gaps_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_dox_basic_metaprogramming_control.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_align_global_alignment_unbanded.dir/build'. +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 -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.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]: Entering 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_find_finder_aho_corasick make[3]: Entering 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of 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' -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]: 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_blast_blast_in_lowlevel.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_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_bellman_ford_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_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_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_dox_align_integrate_align.dir/build'. -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' -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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_arg_parse_argument_parser.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' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra +Consolidate compiler generated dependencies of target demo_dox_arg_parse_argument_parser make[3]: Entering 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_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' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build -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". +Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict 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_bam_io_bam_file_in +[ 23%] Built target test_translation +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_tags_dict.dir/build.make 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' -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". +[ 24%] Built target demo_dox_align_global_alignment_unbanded make[3]: Entering 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_align_split_split_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_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build +[ 24%] Built target test_ucsc_io make[3]: Entering 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]: 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 -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.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_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_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.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_basic_metaprogramming_logic.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_metaprogramming_math.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend +[ 24%] Built 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_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_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 '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' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_depth_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_basic_metaprogramming_math.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_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path +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_basic_metaprogramming_switch.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_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.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_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_dox_basic_enable_if +[ 24%] Built target test_vcf_io +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 -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 -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build -make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_breadth_first_search -make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.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_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build -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 -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 +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build +[ 25%] Built target demo_dox_align_compute_alignment_stats +[ 25%] Built target demo_blast_blast_in_lowlevel +[ 25%] Built target demo_dox_align_global_alignment_banded +[ 25%] Built target demo_dox_align_gaps_example +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build +[ 25%] Built target demo_dox_align_integrate_align +[ 25%] Built target demo_dox_align_profile_profile_seq_score +[ 25%] Built target demo_dox_align_extend_extend_alignment +[ 25%] Built target demo_dox_align_profile_profile_seq_frac_score +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +[ 25%] Built target demo_dox_arg_parse_argument_parser +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". +[ 25%] Built target demo_dox_align_split_split_alignment +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[3]: Entering 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]: 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 -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_basic_zip_iterator.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_dox_basic_simple_type_construction.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 -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend +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 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]: 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/depend +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 -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[3]: Entering 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]: 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 -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.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_all_pairs_shortest_path.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_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_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_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' -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.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_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_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.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_find_finder_index.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' -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' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.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_find_finder_online.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_find_finder_online.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_dox_gff_io_UNUSED_gff_stream_read.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_graph_algorithms_breadth_first_search.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 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.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_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". +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". +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_logic +[ 25%] Built target demo_dox_bam_io_bam_file_in +[ 26%] Built target demo_dox_bam_io_bam_tags_dict 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_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build +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_graph_algorithms_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.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_dag_shortest_path.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_graph_algorithms_dag_shortest_path.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_switch +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.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' +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". make[3]: Entering 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]: 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' -[ 24%] Built target test_tabix_io -[ 24%] Built target demo_dox_align_profile_profile_seq_score -[ 24%] Built target test_statistics -[ 24%] Built target test_ucsc_io -[ 24%] Built target test_find_swift -[ 24%] Built target demo_dox_align_extend_extend_alignment -[ 24%] Built target test_vcf_io -[ 25%] Built target demo_dox_align_global_alignment_unbanded -[ 25%] Built target demo_dox_align_align -[ 25%] Built target demo_dox_align_compute_alignment_stats -[ 26%] Built target demo_dox_bam_io_bam_tags_dict -[ 26%] Built target demo_dox_align_profile_profile_seq_frac_score +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_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build +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". [ 26%] Built target demo_dox_basic_enable_if +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 26%] Built target demo_dox_basic_metaprogramming_control 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 -[ 26%] Built target demo_dox_basic_metaprogramming_math +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 -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/depend +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_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". +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". +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_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_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/depend -[ 26%] Built target demo_dox_align_global_alignment_banded -[ 26%] Built target demo_dox_basic_metaprogramming_logic -[ 26%] Built target demo_dox_align_split_split_alignment +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/depend -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_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". +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". +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". +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". +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_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_kruskals_algorithm.dir/DependInfo.cmake "--color=" -[ 26%] Built target demo_dox_align_integrate_align -[ 27%] Built target demo_dox_basic_simple_type_construction -[ 29%] Built target demo_dox_find_finder_online -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[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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/depend -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 -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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend -[ 29%] Built target demo_dox_bam_io_bam_file_in +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". +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". +Consolidate compiler generated dependencies of target demo_dox_basic_simple_type_construction +Consolidate compiler generated dependencies of target demo_dox_basic_zip_iterator +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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". +make[3]: 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 -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_breadth_first_search +Consolidate compiler generated dependencies of target demo_dox_bed_io_UNUSED_bed_stream_read +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". +Consolidate compiler generated dependencies of target demo_dox_gff_io_UNUSED_gff_stream_read +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_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" +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]: 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_dox_graph_algorithms_all_pairs_shortest_path +[ 26%] Built target demo_dox_basic_metaprogramming_logic +Consolidate compiler generated dependencies of target demo_dox_find_finder_aho_corasick +[ 26%] Built target demo_dox_basic_metaprogramming_math +Consolidate compiler generated dependencies of target demo_dox_find_finder_online +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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path +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_find_finder_index +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 -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build +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 +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]: 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_bellman_ford_algorithm +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_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.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_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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_gff_io_UNUSED_gff_stream_read -[ 29%] Built target demo_dox_basic_metaprogramming_control -[ 29%] Built target demo_dox_basic_metaprogramming_switch +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/build +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 -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_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". +[ 26%] Built target demo_dox_basic_metaprogramming_switch +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_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". +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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_arg_parse_argument_parser -[ 29%] Built target demo_dox_find_finder_aho_corasick -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 -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/depend -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend +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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_graph_types_graph_algo_dijkstra.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 +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' +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". +Consolidate compiler generated dependencies of target demo_dox_consensus_consensus_alignment +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_align_gaps_example -[ 29%] Built target demo_dox_basic_zip_iterator -[ 29%] Built target demo_dox_find_finder_index +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' +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend -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[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' +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_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build +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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_graph_algorithms_breadth_first_search +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 -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.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_online.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_begin_atEnd_representative.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_begin_atEnd_representative_bottomUp.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/depend -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend -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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra +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 +[ 27%] Built target demo_dox_basic_simple_type_construction +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]: 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_depth_first_search make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_dag_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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 29%] Built target demo_dox_bed_io_UNUSED_bed_stream_read -[ 29%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm +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' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.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_find_repeats.dir/DependInfo.cmake "--color=" -[ 30%] Built target demo_dox_consensus_consensus_alignment -[ 30%] Built target demo_dox_graph_algorithms_depth_first_search +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' +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_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence 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_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/depend -[ 30%] Built target demo_dox_graph_algorithms_dag_shortest_path -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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_floyd_warshall_algorithm.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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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 -[ 30%] Built target demo_dox_graph_algorithms_dijkstra -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_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]: 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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 +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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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 -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_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_longest_increasing_subsequence.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_graph_algorithms_depth_first_search.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[3]: Entering 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_ford_fulkerson_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_find_finder_aho_corasick +[ 27%] Built target demo_dox_graph_algorithms_breadth_first_search +[ 27%] 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' +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_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". +[ 27%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path +[ 27%] Built target demo_dox_find_finder_index +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_kruskals_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". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/depend -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 -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 -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.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_prims_algorithm.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build +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 +[ 27%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm +[ 29%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm +[ 29%] Built target demo_dox_consensus_consensus_alignment +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend +[ 29%] Built target demo_dox_find_finder_online +make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.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_strongly_connected_components.dir/DependInfo.cmake "--color=" +[ 29%] Built target demo_dox_graph_algorithms_dag_shortest_path make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_common_subsequence +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_index_mummy.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_graph_algorithms_transitive_closure.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/depend +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.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 -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.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_align_graph_align.dir/DependInfo.cmake "--color=" +[ 29%] Built target demo_dox_graph_algorithms_dijkstra +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_algorithms_kruskals_algorithm.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_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_node_predicate.dir/DependInfo.cmake "--color=" -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". -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". -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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"/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_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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_common_subsequence.dir/build.make 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 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"/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_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_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 -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend -make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/depend -make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend -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 -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_modifier_cyclic_shape_snippets.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_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_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_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_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_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". -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_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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_increasing_subsequence +[ 30%] Built target demo_dox_graph_algorithms_depth_first_search +[ 30%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm +[ 30%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence +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_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". +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_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_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". +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_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". 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dependencies of target demo_dox_index_begin_range_goDown_representative_repLength -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm -Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats -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/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 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"/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]: 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_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build -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_algorithms_transitive_closure +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_prims_algorithm.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_types_graph_algo_dijkstra +Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative_bottomUp +make[3]: Entering 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 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_graph_align_graph_align make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.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_floyd_warshall_algorithm.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 -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_graph_algorithms_ford_fulkerson_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' +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". +Consolidate compiler generated dependencies of 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_graph_algorithms_longest_increasing_subsequence.dir/build'. -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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". +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make 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' -make[3]: Entering 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_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". +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]: 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 -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build +Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative +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 +[ 31%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence +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". make[3]: Entering 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[3]: 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 +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". make[3]: Entering 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' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.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_transitive_closure.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_UNUSED_shape_hash_next -Consolidate compiler generated dependencies of target demo_dox_index_counting -Consolidate compiler generated dependencies of target demo_dox_index_finder -Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative_bottomUp -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_node_predicate -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 -Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative -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' 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_index_find_repeats make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_iterator_short -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 -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.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 -Consolidate compiler generated dependencies of target demo_dox_graph_align_graph_align +Consolidate compiler generated dependencies of target demo_dox_index_begin_range_goDown_representative_repLength +make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/depend +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_kruskals_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make[3]: Entering 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]: 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[3]: Entering 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' make[3]: Entering 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_index_begin_atEnd_representative_bottomUp.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_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_UNUSED_shape.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' +Consolidate compiler generated dependencies of target demo_dox_index_finder +Consolidate compiler generated dependencies of target demo_dox_index_counting +make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.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_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build -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_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.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_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_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.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[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_dox_index_find_repeats +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_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build +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". +[ 31%] Built target demo_dox_graph_algorithms_prims_algorithm 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_getOccurrences_getFrequency_range_getFibre +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_graph_algorithms_strongly_connected_components +make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build +[ 31%] Built target demo_dox_graph_algorithms_transitive_closure +[ 31%] Built target demo_dox_graph_algorithms_topological_sort +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 +[ 32%] Built target demo_dox_graph_types_graph_algo_dijkstra +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_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". +[ 32%] Built target demo_dox_index_UNUSED_shape_hash_next make[3]: Entering 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' +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_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". +make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.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_index_maxrepeats.dir/DependInfo.cmake "--color=" +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' +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' make[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend +[ 32%] Built target demo_dox_index_UNUSED_shape +[ 32%] Built target demo_dox_index_begin_atEnd_representative_bottomUp +[ 32%] Built target demo_dox_index_UNUSED_shape_hash +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' +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' -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build -make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build -make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.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_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_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/build -make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/build -make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/build -make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/build +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". +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[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 +Consolidate compiler generated dependencies of target demo_dox_index_iterator_short +[ 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_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_index_shape_hash_init.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_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build +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". +[ 33%] Built target demo_dox_index_finder +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 -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build +[ 33%] Built target demo_dox_index_counting +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_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_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_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". +Consolidate compiler generated dependencies of target demo_dox_index_length_countSequences +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_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_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". +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[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 make[3]: Entering 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_index_iterator.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_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend +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' -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_index_iterator_short.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_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.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_align_graph_align.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_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 -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_index_supermaxrepeats.dir/DependInfo.cmake "--color=" +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_index_textAt_indexText_saAt_indexRequire.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_misc_enumerate_strings.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_get_terminal_size.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=" +Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_length_countSequences.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". +Consolidate compiler generated dependencies of target demo_dox_index_open_save +Consolidate compiler generated dependencies of target demo_dox_index_mums +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 -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build -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 -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 -make[3]: Entering 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_find_repeats.dir/build'. +make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build +make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/build +[ 33%] Built target demo_dox_index_find_repeats 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 +Consolidate compiler generated dependencies of 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_index_mums.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.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/build +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.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[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/build +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.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_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build +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' -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering 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]: Entering 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'. +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". +[ 33%] Built target demo_dox_index_iterator +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". +[ 34%] Built target demo_dox_index_iterator_short +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_shape_hash_init +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_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_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". +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_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". +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_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". +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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_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". +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' +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[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_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.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_node_predicate.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_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build +Consolidate compiler generated dependencies of target demo_dox_misc_get_terminal_size +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_misc_get_terminal_size.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_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.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_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_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_misc_name_store_cache +[ 34%] Built target demo_dox_index_length_countSequences +Consolidate compiler generated dependencies of target demo_dox_misc_enumerate_strings +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' +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_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_shape_hash_init.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_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_textAt_indexText_saAt_indexRequire.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_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_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_dox_index_sufarray.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 -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build -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_index_supermaxrepeats +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' +Consolidate compiler generated dependencies of target demo_dox_index_textAt_indexText_saAt_indexRequire +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 +make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.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 -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.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_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.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_interval_tree_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_enumerate_strings.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' +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". +[ 34%] Built target demo_dox_index_mums +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_misc_name_store_cache.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_open_save +[ 34%] Built target demo_dox_index_node_predicate make[3]: Entering 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]: 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_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_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_modifier_modified_string.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_supermaxrepeats.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_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". +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". +[ 34%] Built target demo_dox_index_maxrepeats make[3]: Entering 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]: 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' -[ 30%] Built target demo_dox_graph_algorithms_longest_common_subsequence -[ 31%] Built target demo_dox_graph_types_graph_algo_dijkstra -[ 31%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm -[ 32%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence -[ 32%] Built target demo_dox_graph_algorithms_topological_sort -[ 32%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm -[ 32%] Built target demo_dox_graph_algorithms_prims_algorithm -[ 32%] Built target demo_dox_graph_algorithms_strongly_connected_components -[ 32%] Built target demo_dox_graph_algorithms_kruskals_algorithm -[ 32%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre -[ 32%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence -[ 33%] Built target demo_dox_index_length_countSequences -[ 33%] Built target demo_dox_index_begin_range_goDown_representative_repLength -[ 33%] Built target demo_dox_index_begin_atEnd_representative_bottomUp -[ 33%] Built target demo_dox_graph_algorithms_transitive_closure -[ 33%] Built target demo_dox_graph_align_graph_align -[ 33%] Built target demo_dox_index_UNUSED_shape_hash -[ 33%] Built target demo_dox_index_finder -[ 33%] Built target demo_dox_index_iterator -[ 33%] Built target demo_dox_index_begin_atEnd_representative -[ 33%] Built target demo_dox_index_UNUSED_shape -[ 33%] Built target demo_dox_index_find_repeats -[ 33%] Built target demo_dox_index_counting -[ 33%] Built target demo_dox_index_mummy -[ 34%] Built target demo_dox_index_iterator_short -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend -[ 34%] Built target demo_dox_index_UNUSED_shape_hash_next -[ 34%] Built target demo_dox_index_node_predicate -[ 34%] Built target demo_dox_index_mums +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". +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 34%] Built target demo_dox_index_maxrepeats -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend +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' +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build +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_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 -[ 34%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend +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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_pipe_pool_sorter.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_parallel_splitter_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_pipe_pool_sorter.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.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_score_score.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 -make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend -make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_modifier_cyclic_shape.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_index_shape_hash_init +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". +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". +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_nested +[ 35%] Built target demo_dox_misc_get_terminal_size +[ 35%] Built target demo_dox_index_mummy +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_mod_view +[ 35%] Built target demo_dox_misc_enumerate_strings make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend -[ 35%] Built target demo_dox_index_shape_hash_init -[ 35%] Built target demo_dox_index_open_save -[ 35%] Built target demo_dox_index_supermaxrepeats +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string +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.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build +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 +[ 36%] 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' +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' +Consolidate compiler generated dependencies of target demo_dox_parallel_queue_example +[ 36%] Built target demo_dox_index_supermaxrepeats +[ 36%] Built target demo_dox_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_dox_seeds_seeds_chaining.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_seeds_seeds_extension.dir/DependInfo.cmake "--color=" -[ 35%] Built target demo_dox_misc_enumerate_strings -[ 35%] Built target demo_dox_modifier_modified_string_mod_view -[ 35%] Built target demo_dox_index_sufarray -[ 36%] Built target demo_dox_misc_interval_tree_example +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_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build +[ 36%] Built target demo_dox_misc_name_store_cache +[ 36%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build +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' -[ 36%] Built target demo_dox_misc_get_terminal_size +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_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend +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 +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_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.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_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" -[ 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_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" +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 -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.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_seeds_seeds_extension.dir/DependInfo.cmake "--color=" +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". make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.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_seq_io_fai_index_example.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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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 -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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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[3]: Entering 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' +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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/depend -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_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend +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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend +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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend +Consolidate compiler generated dependencies of target demo_dox_pipe_pool_sorter +Consolidate compiler generated dependencies of target demo_dox_parallel_splitter_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' +Consolidate compiler generated dependencies of target demo_dox_score_score +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_add_seed +[ 36%] Built target demo_dox_modifier_cyclic_shape +[ 36%] Built target demo_dox_modifier_modified_string_mod_view [ 36%] Built target demo_dox_modifier_modified_string -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 -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build +make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build +[ 36%] Built target demo_dox_modifier_cyclic_shape_snippets make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". +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/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_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". +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". +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/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_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". +[ 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". +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_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". +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". +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". +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 -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build +[ 37%] Built target demo_dox_parallel_queue_example +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[3]: Entering 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' make[3]: Entering 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 -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build +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". make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.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_segment.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_string2.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 +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 +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[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_sequence_stringset.dir/DependInfo.cmake "--color=" -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_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 -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend -[ 36%] Built target demo_dox_modifier_cyclic_shape -Consolidate compiler generated dependencies of target demo_dox_parallel_queue_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_dox_sequence_container_view_zip.dir/DependInfo.cmake "--color=" -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". -[ 36%] Built target demo_dox_modifier_cyclic_shape_snippets -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". -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_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_stringset.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=" -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build -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_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". -Consolidate compiler generated dependencies of target demo_dox_parallel_splitter_example -make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/depend -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". -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". -Consolidate compiler generated dependencies of target demo_dox_score_score -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_nested -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_UNUSED_prefix make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build -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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend -make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.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_stream_lexical_cast.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend -make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/depend -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_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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_custom_file_endings.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_parallel_queue_example.dir/build'. +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' -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_sequence_UNUSED_infix +Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip +Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_suffix +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". +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' make[3]: Entering 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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering 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 -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build -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_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_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". -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". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_align_gaps_clipping.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 -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". -make[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.dir/depend -Consolidate compiler generated dependencies of target demo_dox_seq_io_fai_index_example -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". -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_prefix -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". -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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_dox_sequence_string -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". -Consolidate compiler generated dependencies of target demo_dox_pipe_pool_sorter -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_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". +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build +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[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 -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". +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_chaining +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". +Consolidate compiler generated dependencies of target demo_dox_seq_io_fai_index_example +Consolidate compiler generated dependencies of target demo_dox_sequence_segment +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make 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[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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_infix -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_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". -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_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". -make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build -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". +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]: Entering 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'. +make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make 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_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". +[ 37%] Built target demo_dox_parallel_splitter_example +[ 37%] Built target demo_dox_pipe_pool_sorter make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build'. +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' +Consolidate compiler generated dependencies of target demo_dox_sequence_string2 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_add_seed -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]: 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 +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". +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". 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_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". -Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_chaining -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_suffix -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 -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build +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_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/depend +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend +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". 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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -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 -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make 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' -Consolidate compiler generated dependencies of target demo_dox_sequence_stringset -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build -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_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' +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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -Consolidate compiler generated dependencies of target demo_dox_sequence_segment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Entering 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' -Consolidate compiler generated dependencies of target demo_dox_sequence_string2 -Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip -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_pipe_pool_sorter.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_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". -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' -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build -Consolidate compiler generated dependencies of target demo_dox_statistics_build_markov_model -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -make[3]: Leaving 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". -make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build -[ 36%] Built target demo_dox_parallel_queue_example -Consolidate compiler generated dependencies of target demo_dox_stream_lexical_cast -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". make[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering 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_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". -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[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 -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build +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". +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' make[3]: Entering 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'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_segment.dir/build'. +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_sequence_UNUSED_infix.dir/build'. +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_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' -make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build -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_dox_sequence_stringset +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 +Consolidate compiler generated dependencies of target demo_dox_statistics_build_markov_model make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/build -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_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/build -Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences -Consolidate compiler generated dependencies of target demo_howto_custom_file_endings -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". -Consolidate compiler generated dependencies of target demo_howto_scores_init_score -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_sequence_container_view_zip.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_segment.dir/build'. +[ 37%] Built target demo_dox_seeds_seeds_add_seed +[ 37%] Built target demo_dox_sequence_UNUSED_prefix 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_store_store_example make[3]: 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 +[ 37%] Built target demo_dox_score_score Consolidate compiler generated dependencies of target demo_dox_statistics_load_markov_model +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make 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' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_sequence_UNUSED_infix 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_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build +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_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_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[3]: Entering 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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". +make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_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_sequence_string.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_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[3]: 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[3]: Entering 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' -make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build -make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.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_string2.dir/build'. +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_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' 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[3]: Entering 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' -Consolidate compiler generated dependencies of target demo_howto_align_gaps_clipping -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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 -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.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_stream_lexical_cast.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_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/build +make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/depend +[ 38%] Built target demo_dox_seeds_seeds_chaining +make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend +make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.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_store_store_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_howto_efficiently_import_sequences.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' -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_score_score -[ 36%] Built target demo_dox_parallel_splitter_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_howto_filter_similar_sequences.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend +Consolidate compiler generated dependencies of target demo_howto_align_gaps_clipping make[3]: Entering 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_howto_scores_load_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend +Consolidate compiler generated dependencies of target demo_howto_custom_file_endings make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.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_scores_init_score.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_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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build'. -make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.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_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_pipe_pool_sorter -[ 36%] Built target demo_dox_seeds_seeds_add_seed -[ 37%] Built target demo_dox_seeds_seeds_chaining -[ 38%] Built target demo_dox_modifier_modified_string_nested +[ 38%] Built target demo_dox_seeds_seeds_extension +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.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_scores_load_score.dir/build'. +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' -[ 38%] Built target demo_dox_sequence_UNUSED_prefix +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend +[ 38%] Built target demo_dox_seq_io_fai_index_example +[ 38%] Built target demo_dox_sequence_UNUSED_suffix +[ 38%] Built target demo_dox_sequence_string +[ 38%] Built target demo_dox_sequence_segment [ 39%] Built target demo_dox_sequence_container_view_zip -[ 39%] Built target demo_dox_sequence_UNUSED_infix -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend -[ 39%] Built target demo_dox_seeds_seeds_extension +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 39%] Built target demo_dox_seq_io_fai_index_example -make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend +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' [ 39%] Built target demo_dox_sequence_string2 -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend +[ 39%] Built target demo_dox_sequence_stringset +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". [ 39%] Built 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_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" -[ 39%] Built target demo_dox_sequence_UNUSED_suffix 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 -[ 39%] Built target demo_howto_efficiently_import_sequences +[ 39%] Built target demo_dox_statistics_load_markov_model 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/depend -[ 39%] Built target demo_dox_sequence_segment +[ 39%] Built target demo_dox_stream_lexical_cast +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_code_encapsulation.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_basic_code.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_howto_align_gaps_clipping -[ 39%] Built target demo_dox_statistics_load_markov_model cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 39%] Built target demo_howto_custom_file_endings -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". 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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 +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 -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' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend -[ 40%] Built target demo_dox_store_store_example +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". 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 -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 -[ 40%] Built target demo_dox_sequence_stringset -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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 40%] Built target demo_dox_stream_lexical_cast +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/depend -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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.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_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". +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_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". -[ 40%] Built target demo_dox_sequence_string +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 +[ 40%] Built target demo_dox_store_store_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_tutorial_a_first_example_solution_2.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_howto_scores_init_score +Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Built target demo_howto_align_gaps_clipping +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". +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". +Consolidate compiler generated dependencies of target demo_howto_scores_init_score 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_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.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_solution_3.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target demo_howto_using_zip_iterator -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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Built target demo_howto_custom_file_endings +Consolidate compiler generated dependencies of target demo_tabix_io_tabix_vcf +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_howto_filter_similar_sequences +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/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". +make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.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/depend +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_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". +Consolidate compiler generated dependencies of 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/build +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 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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". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code_detailed -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.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". -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 -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/link.d" is newer than depends 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"/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". +Consolidate compiler generated dependencies of 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_howto_using_zip_iterator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_efficiently_import_sequences.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/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_alignment_graph_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_alignment_graph.dir/DependInfo.cmake "--color=" +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_tabix_io_tabix_vcf make[3]: Entering directory '/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]: 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' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos 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'/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[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_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". -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". -Dependencies file 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-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_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_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_6.dir/tutorial/a_first_example/solution_6.cpp.o.d" is newer than depends file 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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_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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_base +Dependencies file 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"/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]: 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 +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_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.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 +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_final_result Dependencies file 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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 -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend -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". -[ 41%] Built target demo_howto_using_zip_iterator -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". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 -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". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_5 -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' -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_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.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[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' +[ 40%] Built target demo_howto_efficiently_import_sequences make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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[3]: Entering directory '/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.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' -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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.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]: 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' -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 +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". +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". +make[3]: Entering directory '/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' +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". +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". +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4 -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 +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' -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 +[ 41%] Built target demo_howto_scores_init_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_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' +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4 +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_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build +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]: 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_6 -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_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alignment_align -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_4_templateSubclassing -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_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build +[ 41%] Built target demo_howto_using_zip_iterator +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 +[ 41%] Built target demo_tabix_io_tabix_vcf +[ 41%] Built target demo_howto_filter_similar_sequences +make[3]: Entering directory '/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]: 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_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build -[ 41%] Built target demo_tutorial_a_first_example_example_tempSubclassing -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 -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph +make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/depend +[ 41%] Built target demo_tutorial_a_first_example_example_tags +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4_templateSubclassing make[3]: Entering directory '/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[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_5 make[3]: Entering directory '/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]: 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_6.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_alignment_align.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_a_first_example_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 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' -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_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_a_first_example_solution_4.dir/build.make 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_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_1 +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_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_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' +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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/depend [ 43%] Built target demo_tutorial_a_first_example_basic_code_detailed -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build +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 +[ 43%] Built target demo_tutorial_a_first_example_example_tempSubclassing +[ 44%] Built target demo_tutorial_a_first_example_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_a_first_example_example_tags_for_print.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_graph_assignment1.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_a_first_example_solution_5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_tabix_io_tabix_vcf +[ 44%] Built target demo_howto_scores_load_score +[ 44%] Built target demo_tutorial_a_first_example_example_tags_for_print +[ 44%] Built target demo_tutorial_a_first_example_code_encapsulation +[ 44%] Built target demo_tutorial_a_first_example_solution_2 +[ 44%] Built target demo_tutorial_a_first_example_final_result +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". +[ 44%] Built target demo_tutorial_a_first_example_solution_3 +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". +[ 44%] Built target demo_tutorial_a_first_example_base +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_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend +[ 44%] Built target demo_tutorial_a_first_example_solution_4 +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.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_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" +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 -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_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/depend +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_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 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_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 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/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=" +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_basic_techniques_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_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_basics_allocator.dir/DependInfo.cmake "--color=" +[ 44%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_6 +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o.d" is newer than depends file 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/build/reproducible-path/seqan2-2.4.0+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_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_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". +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' -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 -[ 43%] Built 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build +[ 44%] Built target demo_tutorial_a_first_example_solution_5 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_matrix.dir/link.d" is newer than depends file 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"/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_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". +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_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". +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". +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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_tutorial_a_first_example_example_tags +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 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". -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". -[ 43%] Built target demo_tutorial_a_first_example_basic_code +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph +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_example_size +Consolidate compiler generated dependencies of target demo_tutorial_alignment_align_assignment1 +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_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build +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". make[3]: Entering directory '/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' make[3]: Entering directory '/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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: 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_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_solution_4.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_alignment_align_assignment1.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' +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_bitsPerValue +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_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' -[ 43%] Built target demo_tutorial_a_first_example_base -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.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_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". +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1 +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". +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_matrix +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' +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_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". +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_ordValue +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 +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". +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". +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_basics_allocator make[3]: Entering directory '/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' -make[3]: Entering directory '/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' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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"/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_alignment_scoring_scheme_matrix +make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build 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_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build -[ 43%] Built 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' -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1 +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_basics_show_alphabets +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make 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_basic_techniques_base +make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.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 -[ 43%] Built target demo_tutorial_a_first_example_example_tags_for_print +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' +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 +make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_basics_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_alignment_scoring_scheme_matrix.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' -[ 43%] Built target demo_tutorial_a_first_example_solution_3 -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_alphabets_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_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' +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]: 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_alphabets_example_bitsPerValue.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' +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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_tutorial_alphabets_example_ordValue.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_alignment_scoring_scheme_simple.dir/build'. +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' +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' -[ 43%] Built target demo_tutorial_a_first_example_solution_2 -[ 43%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing -[ 43%] Built target demo_tutorial_a_first_example_solution_5 -[ 43%] Built target demo_tutorial_a_first_example_solution_6 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 44%] Built target demo_tutorial_alignment_graph_assignment1 -[ 44%] Built target demo_tutorial_alignment_align_assignment1 -[ 44%] Built target demo_tutorial_alignment_align -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/depend -[ 44%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs -[ 44%] Built target demo_tutorial_a_first_example_solution_4 -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 -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]: 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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_show_alphabets.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_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". +[ 45%] Built target demo_tutorial_alignment_align +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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' +make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.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_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 -make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/depend +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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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' +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_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_basics_show_alphabets.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_strings.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' +[ 45%] Built target demo_tutorial_a_first_example_solution_6 +make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build +[ 45%] Built target demo_tutorial_alignment_graph_assignment1 make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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_basics_strings.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_example1.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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_bed_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend -[ 45%] Built target demo_tutorial_a_first_example_solution_1 +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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend +[ 45%] Built target demo_tutorial_alignment_graph +[ 45%] Built target demo_tutorial_alignment_scoring_scheme_matrix +[ 45%] Built target demo_tutorial_alphabets_example_ordValue +[ 45%] Built target demo_tutorial_alphabets_example_size +[ 45%] Built target demo_tutorial_alignment_align_assignment1 +[ 45%] Built target demo_tutorial_alphabets_assignment_1 +[ 45%] Built target demo_tutorial_basics_base +[ 45%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs +[ 45%] Built target demo_tutorial_alphabets_assignment_1_solution +[ 45%] Built target demo_tutorial_alphabets_example_bitsPerValue +[ 47%] Built target demo_tutorial_alignment_scoring_scheme_simple +[ 47%] Built target demo_tutorial_background_and_motivation_example +[ 47%] Built target demo_tutorial_basics_allocator +[ 47%] Built target demo_tutorial_basics_show_alphabets +[ 47%] Built target demo_tutorial_basic_techniques_base +[ 47%] Built target demo_tutorial_basics_strings +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_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/depend -[ 46%] Built target demo_tutorial_alignment_scoring_scheme_simple 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_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/depend +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.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=" -[ 46%] Built target demo_tutorial_alignment_scoring_scheme_matrix -[ 46%] Built target demo_tutorial_alphabets_assignment_1 -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 -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_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_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_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_blast_io_read_assignment.dir/DependInfo.cmake "--color=" -[ 46%] Built target demo_tutorial_alignment_graph -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 -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_bitsPerValue +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_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_blast_io_write_assignment.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_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 -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.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_consensus_alignment_with_positions.dir/DependInfo.cmake "--color=" -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". -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_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_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/depend -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". -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_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend -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_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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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_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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.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_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1_solution -Dependencies file 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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' -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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 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demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_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_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" 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". -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 -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make 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' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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 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demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/depend 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_file_io_overview_solution3.dir/DependInfo.cmake "--color=" -Dependencies file 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/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=" +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". +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution1 +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". 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/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". -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 -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". -make[3]: 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 -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". -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_size -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_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". +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_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_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". -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_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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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_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 -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_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_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". +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_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_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_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_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". 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_bed_io_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_basics_show_alphabets -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.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_basic_techniques_base.dir/build'. -Consolidate compiler generated dependencies of target demo_tutorial_background_and_motivation_example +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d" is newer 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"/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_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". +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". +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". +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". +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". +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". +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". +Consolidate compiler generated dependencies of target demo_tutorial_blast_io_write_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". +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 +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]: 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/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". +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.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". 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_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build +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_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_basics_base -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[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' 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_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_template_subclassing +make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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_basics_allocator.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' -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_bed_io_base -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". -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]: 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_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 -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make 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' -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_bed_io_solution1 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_reads2 +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_example1 +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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_alphabets_assignment_1_solution.dir/build'. +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[3]: Entering directory '/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]: 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_write_assignment -Dependencies file 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"/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". -Consolidate compiler generated dependencies of target demo_tutorial_basics_strings -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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base 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_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_example_hashing +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_with_positions -Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_without_positions +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make 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 -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_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_basics_base.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 -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_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[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_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads +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_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' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build +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_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 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_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_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_tutorial_basics_show_alphabets.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_bed_io_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_genome_annotations_assignment_1_hint make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.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[3]: Entering directory '/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_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_file_io_overview_example1 Consolidate compiler generated dependencies of target demo_tutorial_blast_io_read_assignment -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution3 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_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' -Dependencies file 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'/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' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_display_aligned_reads +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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build'. -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 +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]: 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build +[ 48%] Built target demo_tutorial_bed_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_consensus_alignment_with_positions.dir/build'. +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_bed_io_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_base.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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_solution3.dir/build'. +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' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 +make[3]: Entering directory '/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' -[ 46%] Built target demo_tutorial_alphabets_example_bitsPerValue -[ 46%] Built target demo_tutorial_basics_allocator make[3]: Entering directory '/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]: 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_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build -[ 46%] Built target demo_tutorial_alphabets_assignment_1_solution +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_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_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_blast_io_read_assignment.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' -[ 46%] Built target demo_tutorial_basic_techniques_base +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_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_file_io_overview_solution2.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_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_file_io_overview_solution1.dir/build'. +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' +[ 48%] Built target demo_tutorial_bed_io_solution2 make[3]: Entering directory '/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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 47%] Built target demo_tutorial_alphabets_example_size [ 48%] Built target demo_tutorial_bed_io_example1 -[ 48%] Built target demo_tutorial_basics_base -[ 48%] Built target demo_tutorial_background_and_motivation_example -[ 48%] Built target demo_tutorial_bed_io_base -[ 48%] Built target demo_tutorial_bed_io_solution1 -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 -[ 48%] Built target demo_tutorial_basics_show_alphabets -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 -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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/depend -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend -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_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=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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 -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Built target demo_tutorial_blast_io_write_assignment +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/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_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_1_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_genome_annotations_assignment_3_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 +[ 48%] Built target demo_tutorial_file_io_overview_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_genome_annotations_assignment_1_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Built target demo_tutorial_consensus_alignment_without_positions +[ 48%] Built target demo_tutorial_bed_io_solution3 +[ 48%] Built target demo_tutorial_file_io_overview_example1 +[ 48%] Built target demo_tutorial_file_io_overview_solution2 +[ 48%] Built target demo_tutorial_generic_programming_template_subclassing +[ 48%] Built target demo_tutorial_generic_programming_example_hashing +[ 48%] Built target demo_tutorial_fragment_store_access_aligned_reads2 +[ 49%] Built target demo_tutorial_consensus_alignment_with_positions +[ 49%] Built target demo_tutorial_fragment_store_base +[ 50%] Built target demo_tutorial_fragment_store_access_aligned_reads 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/depend +[ 50%] Built target demo_tutorial_blast_io_read_assignment +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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 48%] Built target demo_tutorial_bed_io_solution2 +[ 50%] Built target demo_tutorial_file_io_overview_solution3 +[ 50%] 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_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_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_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_4_solution.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 -[ 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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 48%] Built target demo_tutorial_bed_io_solution3 -[ 48%] Built target demo_tutorial_blast_io_write_assignment -[ 48%] Built target demo_tutorial_file_io_overview_solution1 -[ 48%] Built target demo_tutorial_basics_strings -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_solution2 -[ 49%] Built target demo_tutorial_consensus_alignment_without_positions -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 -[ 49%] Built target demo_tutorial_consensus_alignment_with_positions +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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 49%] Built target demo_tutorial_blast_io_read_assignment -[ 49%] Built target demo_tutorial_file_io_overview_solution3 -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_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 -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend +[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_hint make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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 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"/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_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_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_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_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". -make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/depend -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_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_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". -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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -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 -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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/depend +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_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 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"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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make 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demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/depend -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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/depend +[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_solution +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_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_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_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_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_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_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_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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" +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_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_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". +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". +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_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". +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". +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". 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_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". -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_genome_annotations_assignment_2_solution +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". +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". +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_base -Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_template_subclassing -Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_example_hashing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_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/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". +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_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". +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[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_base Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_4_solution +Consolidate compiler generated dependencies of 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[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_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_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build +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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_index_iterators_index_search.dir/DependInfo.cmake "--color=" +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' -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". -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_solution +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution1 +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_gff_and_gtf_io_example1 -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make 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' -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base -Consolidate compiler generated dependencies of 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". -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[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 +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]: 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 -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_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build -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_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_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". -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[3]: Entering directory '/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' -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example2 -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 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". +Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_dijkstra +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 +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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.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' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_hint -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". -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". +Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_algo_scc +Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_hmm +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_gff_and_gtf_io_solution2 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 -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build -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_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build 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_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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build'. +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: 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/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_index_iterators_index_assignment2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_reads.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_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_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_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". +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_base +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[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 -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads2 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 -Consolidate compiler generated dependencies of target demo_tutorial_graph_solution_1 -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_index_iterators_index_assignment2.dir/build.make 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_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". +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' -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". -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 -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_bidirectional_search -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". -make[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.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[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_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_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". +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_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_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_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_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_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build +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_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build +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_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.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_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build +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[3]: Entering directory '/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_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_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_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]: Entering directory '/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_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". -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_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' -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_gff_and_gtf_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_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_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". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_bidirectional_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_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_genome_annotations_assignment_3_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_genome_annotations_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_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]: Entering directory '/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' +make[3]: Entering directory '/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_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_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[3]: Entering directory '/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]: 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' -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". -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_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". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_preorder make[3]: Entering directory '/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]: 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 -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make 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' +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 make[3]: Entering directory '/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]: 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_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]: 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_solution1 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build +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_index_iterators_index_bidirectional_search.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_2_solution Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_property_maps make[3]: Entering directory '/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_index_iterators_index_preorder.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_3_solution +[ 51%] Built 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' -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 -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 -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_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". -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". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution3 -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". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution3 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 -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_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]: 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_index_iterators_index_search.dir/build.make 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_index_iterators_index_search2 +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 +[ 53%] Built target demo_tutorial_graph_graph_algo_scc make[3]: Entering directory '/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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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]: 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' +[ 53%] Built target demo_tutorial_genome_annotations_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_index_iterators_index_search2.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_iterator_assignment2.dir/DependInfo.cmake "--color=" +[ 53%] Built target demo_tutorial_gff_and_gtf_io_example1 +[ 53%] Built target demo_tutorial_gff_and_gtf_io_example2 +[ 53%] Built target demo_tutorial_gff_and_gtf_io_solution2 +[ 53%] Built target demo_tutorial_gff_and_gtf_io_solution1 +[ 53%] Built target demo_tutorial_graph_graph_dijkstra +[ 53%] Built target demo_tutorial_gff_and_gtf_io_solution3 +[ 53%] Built target demo_tutorial_graph_graph_hmm +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend +[ 53%] Built target demo_tutorial_graph_solution_1 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_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_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" +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' +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' -[ 50%] Built target demo_tutorial_fragment_store_display_aligned_reads -[ 50%] Built target demo_tutorial_fragment_store_base -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_gff_and_gtf_io_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_assignment2 +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend +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[3]: Entering directory '/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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_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_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 -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_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_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 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/build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/depend +[ 53%] Built target demo_tutorial_index_iterators_index_assignment1 +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". +[ 53%] Built target demo_tutorial_index_iterators_index_assignment2 +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". +[ 53%] Built target demo_tutorial_index_iterators_index_bidirectional_search +[ 54%] Built target demo_tutorial_index_iterators_index_preorder +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". +[ 54%] Built target demo_tutorial_index_iterators_index_property_maps +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/depend +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 -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 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"/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". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend +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_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". +[ 54%] Built target demo_tutorial_index_iterators_index_search +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/tutorial/index_iterators/iterator_solution3.cpp.o.d" is newer than depends file 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"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_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_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_index_iterators_iterator_solution2.dir/link.d" is newer than depends file 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+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". +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_index_iterators_index_search2 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_indexed_fasta_io_base make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build -[ 50%] Built target demo_tutorial_generic_programming_example_hashing -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build +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". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_assignment2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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 -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build -[ 50%] Built target demo_tutorial_fragment_store_access_aligned_reads -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_algo_scc -[ 50%] Built target demo_tutorial_genome_annotations_assignment_2_solution +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". +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 +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler 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"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". Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution1 +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". +Consolidate compiler generated dependencies of target demo_tutorial_indices_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". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution3 +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_indexed_fasta_io_solution2 +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_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". +Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_1 +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". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_2 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_indexed_fasta_io_solution1 +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_index_iterators_index_property_maps.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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 50%] Built 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[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.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' -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_hmm -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_dijkstra -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_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.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". +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[3]: Entering directory 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"/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_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". +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_2_solution make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_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_index_iterators_iterator_solution2.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 -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.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_preorder.dir/build'. +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_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build +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". +Consolidate compiler generated dependencies of target demo_tutorial_indices_fm_index +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.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". +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1_solution +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' -[ 50%] Built target demo_tutorial_genome_annotations_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_index_iterators_iterator_solution3.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop_solution 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' -[ 50%] Built 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' make[3]: Entering directory '/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]: 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_index_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_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build -make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.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]: 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' -make[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 50%] Built target demo_tutorial_genome_annotations_base -[ 51%] Built target demo_tutorial_gff_and_gtf_io_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_graph_graph_hmm.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' -[ 52%] Built target demo_tutorial_genome_annotations_assignment_1_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_graph_graph_dijkstra.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' -[ 51%] Built target demo_tutorial_gff_and_gtf_io_example1 -[ 52%] Built target demo_tutorial_index_iterators_index_assignment2 -[ 52%] Built target demo_tutorial_graph_solution_1 -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend -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_indexed_fasta_io_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend -[ 52%] Built 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 52%] Built target demo_tutorial_gff_and_gtf_io_example2 +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_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_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_indices_assignment_1.dir/DependInfo.cmake "--color=" +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_iterators_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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend -make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/depend +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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/depend -[ 52%] Built target demo_tutorial_graph_graph_dijkstra -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]: 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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend -[ 52%] Built target demo_tutorial_graph_graph_hmm -[ 52%] Built target demo_tutorial_index_iterators_iterator_solution3 -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[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' +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_4_workshop_solution +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_iterators_assignment_1_solution.dir/DependInfo.cmake "--color=" -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 +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_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_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_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" +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 -f demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build +[ 54%] Built target demo_tutorial_index_iterators_index_search2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 52%] Built target demo_tutorial_index_iterators_index_assignment1 +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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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' +[ 54%] Built target demo_tutorial_indexed_fasta_io_base make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_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_4_workshop_solution.dir/DependInfo.cmake "--color=" -[ 52%] Built target demo_tutorial_index_iterators_index_search2 -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". -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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -[ 52%] Built target demo_tutorial_index_iterators_iterator_solution1 +make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.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_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -[ 52%] Built target demo_tutorial_index_iterators_index_search -[ 52%] Built target demo_tutorial_index_iterators_iterator_assignment2 -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_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/depend -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_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". -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 +[ 54%] Built target demo_tutorial_index_iterators_iterator_assignment2 +[ 55%] Built target demo_tutorial_index_iterators_iterator_solution1 +[ 55%] Built target demo_tutorial_index_iterators_iterator_solution2 +[ 55%] Built target demo_tutorial_indices_base +[ 55%] Built target demo_tutorial_index_iterators_iterator_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_journaled_set_base.dir/DependInfo.cmake "--color=" -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_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". -[ 52%] Built target demo_tutorial_index_iterators_index_bidirectional_search -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution1 +[ 55%] Built target demo_tutorial_indices_assignment_1 +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 +[ 55%] Built target demo_tutorial_indexed_fasta_io_solution2 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 -[ 52%] Built target demo_tutorial_index_iterators_index_property_maps -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 -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 -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 -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_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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 +[ 56%] 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_online_search.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution1 -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 -[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution3 -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_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/depend +[ 56%] Built target demo_tutorial_iterators_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_tutorial_journaled_set_solution_online_search_assignment1.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_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=" -[ 54%] Built target demo_tutorial_graph_graph_algo_scc -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build -[ 54%] Built target demo_tutorial_index_iterators_iterator_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_base -[ 55%] Built target demo_tutorial_index_iterators_index_preorder +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 58%] Built target demo_tutorial_iterators_assignment_4_workshop_solution +[ 58%] Built target demo_tutorial_indices_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_tutorial_journaled_set_solution_online_search_assignment2.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_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". -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_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_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_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". -[ 55%] Built target demo_tutorial_genome_annotations_assignment_3_solution -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". -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". -Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_1 -[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build -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 -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution2 +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". +[ 58%] Built target demo_tutorial_iterators_assignment_2_solution +[ 58%] Built target demo_tutorial_iterators_assignment_3_workshop_solution +[ 56%] Built target demo_tutorial_indexed_fasta_io_solution1 +[ 56%] Built target demo_tutorial_iterators_assignment_3_workshop +[ 56%] Built target demo_tutorial_iterators_assignment_1 +[ 56%] Built target demo_tutorial_indices_find2_index_approx +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend -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_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 -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_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_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.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_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_string_tree_journaled_string_tree_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_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_solution_online_search_assignment3.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[3]: Entering directory '/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'. -Consolidate compiler generated dependencies of target demo_tutorial_indices_base -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend +Consolidate compiler generated dependencies of 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" 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"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_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". +make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build +[ 58%] Built target demo_tutorial_iterators_base +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modview +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment2 +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend +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". +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_base make[3]: 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 -Dependencies file 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"/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 -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make 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_iterators_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.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 -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build -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]: Entering directory '/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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_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_tutorial_iterators_sequence_iterator_demo.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' -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". -make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/depend -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_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". +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search_assignment1_hint +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment3 +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 +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_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". Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search -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". -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment1 -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_1 -[ 55%] Built target demo_tutorial_indexed_fasta_io_solution1 -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 -Dependencies file 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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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_iterators_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_indices_fm_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_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_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". -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 -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". -Consolidate compiler generated dependencies of target demo_tutorial_iterators_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_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' -make[3]: Entering directory '/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'. -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1_solution 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_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]: 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 +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modreverse +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_journaled_set_solution_online_search_assignment1 +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 +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_UNUSED_modcomplementdna +Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_assignment1_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/build +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment4 make[3]: Entering directory '/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_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_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_journaled_string_tree_journaled_string_tree_base -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_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[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_assignment1 +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". +Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_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_journaled_set_example_online_search.dir/build'. +make[3]: Nothing to be done for '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' -[ 55%] Built target demo_tutorial_iterators_sequence_iterator_demo +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". make[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_indices_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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_journal_string_basic make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment4 +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_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_indexed_fasta_io_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment3 -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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_base.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' +Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +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_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.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 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_base.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_join +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_join.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' +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1_solution +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". +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build +[ 58%] Built target demo_tutorial_iterators_sequence_iterator_demo make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_indices_assignment_2 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.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 +make[3]: Entering directory '/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' -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_iterators_assignment_1_solution.dir/build'. +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[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_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' -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 -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build +[ 58%] Built target demo_tutorial_metafunctions_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_modifiers_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_tutorial_iterators_assignment_1.dir/build'. +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' +make[3]: Entering directory '/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' -[ 56%] Built target demo_tutorial_indexed_fasta_io_base -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 -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". -[ 56%] Built target demo_tutorial_indices_fm_index -[ 56%] 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' +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' make[3]: Entering directory '/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_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' 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_modifiers_nested make[3]: Entering directory '/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_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_iterators_assignment_3_workshop_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_journaled_set_solution_online_search_assignment2.dir/build'. +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' -Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_assignment1_solution -[ 56%] 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' +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[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 -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build -[ 56%] Built target demo_tutorial_indices_base -[ 56%] Built target demo_tutorial_indices_find2_index_approx -[ 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' -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' -[ 58%] Built target demo_tutorial_journaled_set_example_join -make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_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_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.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_metafunctions_base.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 -[ 58%] Built target demo_tutorial_iterators_base -[ 58%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint +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' +[ 58%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 [ 58%] Built target demo_tutorial_journaled_set_example_online_search -[ 58%] Built target demo_tutorial_iterators_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/depend +[ 58%] Built target demo_tutorial_journaled_set_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_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" -[ 58%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base -[ 58%] Built target demo_tutorial_iterators_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend -[ 59%] Built target demo_tutorial_iterators_assignment_3_workshop -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 -[ 59%] Built target demo_tutorial_iterators_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend -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=" -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_modview.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_modifiers_modreverse.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend -[ 59%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 -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_nested.dir/DependInfo.cmake "--color=" +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' +[ 58%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint +[ 58%] Built target demo_tutorial_modifiers_modview make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.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_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_multiple_sequence_alignment_consensus.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_multiple_sequence_alignment_msa.dir/DependInfo.cmake "--color=" 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 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 +[ 60%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna +[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 +[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 +[ 60%] Built target demo_tutorial_journaled_set_example_journal_string_basic +[ 60%] Built target demo_tutorial_metafunctions_assignment1_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_multiple_sequence_alignment_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 60%] Built target demo_tutorial_modifiers_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_pairwise_sequence_alignment_alignment_global_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_banded.dir/DependInfo.cmake "--color=" +[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 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 +[ 60%] Built target demo_tutorial_modifiers_modreverse 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 -[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 +[ 60%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base 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 -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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.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_standard.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_alignment_global_assignment3.dir/DependInfo.cmake "--color=" +[ 60%] Built target demo_tutorial_modifiers_assignment1_solution +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_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". +[ 61%] 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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 61%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +[ 61%] Built target demo_tutorial_modifiers_nested +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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_assignment1 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 -[ 60%] Built target demo_tutorial_metafunctions_assignment1_solution -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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_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". -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_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_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_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". make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend -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". 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 -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_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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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_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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 -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/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_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_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 -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/depend -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_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/depend -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 -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1_solution +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_alignment_local_assignment1.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". make[3]: Entering 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/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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_pairwise_sequence_alignment_assignment5_step4.dir/DependInfo.cmake "--color=" -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1 -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". -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". -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_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_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_step2.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_step4.dir/DependInfo.cmake "--color=" +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". +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_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_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". +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_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_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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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". 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_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_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_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". 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_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 -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 -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' -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_parsing_command_line_arguments_assignment2_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_parsing_command_line_arguments_assignment3_solution.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 -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.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 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/build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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". -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_msa -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_UNUSED_modcomplementdna -Dependencies file 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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_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_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_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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_banded -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 +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_multiple_sequence_alignment_msa +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". +Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_consensus +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_pairwise_sequence_alignment_alignment_global_assignment3 +Dependencies 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"/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". 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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_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". -make[3]: Entering 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 -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_consensus -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 +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_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". +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 +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_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_alignment_local_assignment1 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_nested.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_assignment2.dir/build.make 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' -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +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_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". Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap 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]: 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_pairwise_sequence_alignment_alignment_global_assignment2 -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 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'/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 '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 -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 -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". -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 -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies 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'/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_banded.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_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". +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 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_local make[3]: Entering directory '/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]: 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_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_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_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". make[3]: Entering directory '/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]: 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' -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". -Consolidate compiler generated dependencies of 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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.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]: 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_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build +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 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5 +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". 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_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.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_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_pairwise_sequence_alignment_alignment_global_assignment2.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 -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 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". -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_assignment5_solution +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +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 Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 +[ 62%] Built target demo_tutorial_multiple_sequence_alignment_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_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[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' -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_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]: 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' +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_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 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.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_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[3]: Entering directory '/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_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_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_pairwise_sequence_alignment_assignment5_step3 -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.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 -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 -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 -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_step5 -make[3]: Entering directory '/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 -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[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_assignment5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build -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[3]: Entering directory '/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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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_pairwise_sequence_alignment_assignment5_step2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.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[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 +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 -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 -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment2_solution +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_pairwise_sequence_alignment_alignment_local.dir/build'. +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' +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment2_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' -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_step1.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_pairwise_sequence_alignment_alignment_local.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_step6 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_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' -[ 60%] Built target demo_tutorial_modifiers_assignment1_solution -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_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_pairwise_sequence_alignment_assignment5.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]: Entering directory '/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_assignment3_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.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_specialised.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_assignment5_step4.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_assignment3.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' 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_step5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_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_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' -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_step6.dir/build'. +[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_banded +[ 62%] Built target demo_tutorial_multiple_sequence_alignment_consensus make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 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' -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' +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 +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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_modifiers_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_modifiers_nested -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' -[ 60%] Built target demo_tutorial_modifiers_modview -[ 60%] Built target demo_tutorial_metafunctions_base -[ 61%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna -[ 61%] Built target demo_tutorial_multiple_sequence_alignment_consensus +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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 -[ 61%] Built target demo_tutorial_multiple_sequence_alignment_msa -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 -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 -[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 -[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_banded -[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 -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 +[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 +[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 +[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 +[ 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_parsing_command_line_arguments_assignment6_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_parsing_command_line_arguments_example1.dir/DependInfo.cmake "--color=" +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard +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 +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 +[ 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_parsing_command_line_arguments_base.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 -[ 62%] Built target demo_tutorial_multiple_sequence_alignment_assignment1 +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +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". +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 +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_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/depend +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 -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 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -[ 62%] Built target demo_tutorial_modifiers_modreverse -[ 62%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_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 +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_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_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_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=" +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_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=" -[ 62%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_solution -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_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_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_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_pattern_matching_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend -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_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". -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_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.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_assignment1_solution.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/depend -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". -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_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend +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_assignment2.dir/DependInfo.cmake "--color=" -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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_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_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" -[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_modifyString +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_pattern_matching_assignment3.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_assignment3_solution.dir/DependInfo.cmake "--color=" make -f 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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' +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". +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 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"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". +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_base +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". 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_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.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_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". +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment6_solution +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[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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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 -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build +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". 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_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.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". -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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build'. +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' -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". +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". make[3]: Entering directory '/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]: 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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". +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_pattern_matching_assignment1 -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". -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_struct -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 -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 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build +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_parsing_command_line_arguments_example1_detailed.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' +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2 -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". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_exact -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution -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 -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_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 -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_parsing_command_line_arguments_example1_detailed +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". +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example1 +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]: 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_assignment1_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_final_solution +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_assignment6_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_parsing_command_line_arguments_example_with_struct +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_modifyString 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_pattern_matching_assignment1.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_pattern_matching_find_index.dir/DependInfo.cmake "--color=" +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[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_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.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[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 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_approx +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_own_function make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2 Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2_solution +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1_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_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' -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". -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString -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 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build -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". -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_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_pattern_matching_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_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_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_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' -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1 -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' -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/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". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_approx -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_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[3]: Entering directory '/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'. +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' +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]: 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/depend -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_realignment_step1.dir/DependInfo.cmake "--color=" +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' 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_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build +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 +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3_solution +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_exact +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_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_pattern_matching_assignment3.dir/build'. +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' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_solution +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_base +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make 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]: 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 -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.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/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_pattern_matching_assignment2_solution.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_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_sam_and_bam_io_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_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" +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' -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_pattern_matching_assignment1_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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/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' -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_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_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_q_gram_index_index_assignment5 -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment6 -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function -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 -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed +[ 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]: 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_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_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_tutorial_pattern_matching_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_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index_multiple -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". +make[3]: Entering directory '/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]: 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 -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build -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_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". -[ 66%] Built target demo_tutorial_pattern_matching_assignment1_solution -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[3]: Entering directory '/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_find_exact.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_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". -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". -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram_hash +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_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". +[ 66%] Built target demo_tutorial_pattern_matching_assignment1 +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example1 +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString +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_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". +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function +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 +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 +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_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_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.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_assignment6.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_qgram.dir/DependInfo.cmake "--color=" +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=" +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/depend -[ 67%] 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' +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index 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 -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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 67%] 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_pattern_matching_find_index_multiple.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_realignment_step2.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_q_gram_index_index_assignment6.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_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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.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_sam_and_bam_io_example7.dir/DependInfo.cmake "--color=" +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Built target demo_tutorial_pattern_matching_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index_multiple +[ 67%] Built target demo_tutorial_pattern_matching_assignment2 +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_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.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_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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.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_sam_and_bam_io_solution1.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/build +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment5 +[ 67%] Built target demo_tutorial_pattern_matching_assignment3_solution +[ 67%] Built target demo_tutorial_pattern_matching_assignment2_solution +[ 68%] Built target demo_tutorial_pattern_matching_find_exact +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 +[ 68%] Built target demo_tutorial_pattern_matching_find_approx +[ 68%] Built target demo_tutorial_pattern_matching_assignment3 +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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_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". +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_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_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". +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_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_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_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_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_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". -[ 68%] Built target demo_tutorial_pattern_matching_assignment2 -[ 68%] Built target demo_tutorial_pattern_matching_assignment1 -[ 68%] Built target demo_tutorial_pattern_matching_assignment3_solution -[ 68%] Built target demo_tutorial_pattern_matching_assignment3 -[ 68%] Built target demo_tutorial_parsing_command_line_arguments_final_solution -Consolidate compiler generated dependencies of target demo_tutorial_realignment_step1 -Consolidate compiler generated dependencies of target demo_tutorial_realignment_step2 -[ 68%] Built target demo_tutorial_pattern_matching_assignment2_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 -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_q_gram_index_index_qgram_hash.dir/build'. +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' -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 -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_base -[ 68%] Built target demo_tutorial_pattern_matching_find_approx -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_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". -[ 68%] Built target demo_tutorial_pattern_matching_find_index 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". -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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 68%] Built target demo_tutorial_q_gram_index_index_assignment5 -[ 68%] Built target demo_tutorial_q_gram_index_index_qgram -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/depend -[ 68%] Built target demo_tutorial_q_gram_index_index_assignment6 +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' +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_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". +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/depend +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". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_seed_and_extend_example1.dir/DependInfo.cmake "--color=" -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]: Entering directory '/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'. -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_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". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_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_tutorial_seed_and_extend_example2.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_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend -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". -[ 68%] Built target demo_tutorial_pattern_matching_find_index_multiple -make[3]: Entering directory '/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_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' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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". -[ 69%] Built target demo_tutorial_q_gram_index_index_qgram_hash -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_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_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend +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_sam_and_bam_io_example2 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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/depend -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.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_example5.dir/DependInfo.cmake "--color=" -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_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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example2 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.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_q_gram_index_index_assignment6 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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' +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram_hash 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 +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_base +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_example1 +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_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.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 +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_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example7 +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' -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". -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.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_solution1.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_realignment_step1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 68%] Built target demo_tutorial_pattern_matching_find_index +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 68%] Built target demo_tutorial_pattern_matching_find_index_multiple 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_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/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". -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' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_sam_and_bam_io_solution1 +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". +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". +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_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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_q_gram_index_index_qgram.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_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_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". -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution2 -[ 69%] Built target demo_tutorial_sam_and_bam_io_base -[ 69%] Built target demo_tutorial_realignment_step2 -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". +make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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". -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_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/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". +Consolidate compiler generated dependencies of target demo_tutorial_realignment_step2 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". -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_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_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_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 -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/depend -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_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_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". -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_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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 69%] Built target demo_tutorial_realignment_step1 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example3 +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/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". +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". make[3]: Entering directory '/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]: 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_example2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_sam_and_bam_io_example1 +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_sam_and_bam_io_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_sam_and_bam_io_solution2.dir/build.make 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 -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 -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_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_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". -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example7 -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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: 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_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_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_sam_and_bam_io_solution1.dir/build'. +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' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example4 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example7 -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 -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/depend -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_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 -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.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_seeds_example1.dir/DependInfo.cmake "--color=" +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 -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_sam_and_bam_io_solution2.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 -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.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_realignment_step1.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_example7.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_example6.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_sam_and_bam_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_seeds_solution1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.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_base.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/build +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' +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". Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution3 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 -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' +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_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_tutorial_seed_and_extend_example7.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_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 -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_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_example3.dir/build'. +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". +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example2 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution2 +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". +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example3 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 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example6 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution1 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_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build +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 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_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build -[ 69%] Built target demo_tutorial_sam_and_bam_io_solution1 -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". +[ 68%] Built target demo_tutorial_q_gram_index_index_assignment6 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' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 -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]: 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". +[ 68%] Built target demo_tutorial_q_gram_index_index_assignment5 +[ 68%] Built target demo_tutorial_q_gram_index_index_qgram +[ 69%] Built target demo_tutorial_q_gram_index_index_qgram_hash +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]: Entering directory '/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'. -[ 69%] Built 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_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_seed_and_extend_solution1.dir/build.make 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]: 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 -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution5 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build +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 +[ 69%] Built target demo_tutorial_sam_and_bam_io_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_seed_and_extend_example5.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_tutorial_seed_and_extend_solution1.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_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_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.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_solution2.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_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 -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/depend +[ 69%] Built target demo_tutorial_sam_and_bam_io_example2 +[ 69%] Built target demo_tutorial_realignment_step1 +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_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_seed_and_extend_example4 +[ 69%] Built 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_seed_and_extend_solution4.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]: 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". +[ 70%] Built target demo_tutorial_sam_and_bam_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_seed_and_extend_solution1.dir/build'. +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' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 -[ 69%] Built target demo_tutorial_sam_and_bam_io_example2 -[ 69%] Built target demo_tutorial_sam_and_bam_io_solution2 +[ 70%] Built target demo_tutorial_realignment_step2 +[ 70%] Built target demo_tutorial_sam_and_bam_io_example7 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 make[3]: Entering directory '/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' -Consolidate compiler generated dependencies of target demo_tutorial_seeds_example1 -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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build'. +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build -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_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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/depend 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/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build +make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/depend +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' -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_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.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_solution4.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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_sam_and_bam_io_example7 -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Entering directory '/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]: 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". -[ 70%] Built target demo_tutorial_seed_and_extend_example4 -[ 70%] Built target demo_tutorial_seed_and_extend_example5 -[ 70%] Built target demo_tutorial_sam_and_bam_io_solution3 -[ 72%] Built target demo_tutorial_seed_and_extend_example3 -[ 72%] Built target demo_tutorial_seed_and_extend_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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 -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_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_sequence_io_example1.dir/DependInfo.cmake "--color=" -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.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_seed_and_extend_example4.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/depend -[ 72%] Built target demo_tutorial_seed_and_extend_example7 +[ 70%] 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_sequence_io_solution1.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 -[ 73%] Built target demo_tutorial_seed_and_extend_solution3 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.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_example6 +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example7 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_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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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 -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build -[ 73%] Built target demo_tutorial_seed_and_extend_example6 -make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build -[ 73%] Built target demo_tutorial_seed_and_extend_example1 +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". +[ 72%] Built target demo_tutorial_seed_and_extend_example3 +[ 72%] Built target demo_tutorial_seed_and_extend_example1 +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". +[ 72%] Built target demo_tutorial_seed_and_extend_example2 +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_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_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". +[ 72%] Built target demo_tutorial_sam_and_bam_io_solution2 +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_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". +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". +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_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". +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_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_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". +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". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build +[ 72%] Built target demo_tutorial_seed_and_extend_example4 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution1 +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 -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/depend +[ 72%] Built target demo_tutorial_seed_and_extend_example5 make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/depend +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/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_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/depend +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". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.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_sequence_io_solution3.dir/DependInfo.cmake "--color=" +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_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_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_solution4.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seed_and_extend_solution2 +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 -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_sequences_assignment_1_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_sequence_io_solution3.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 73%] Built target demo_tutorial_seed_and_extend_solution1 -[ 73%] Built target demo_tutorial_seed_and_extend_solution5 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/depend +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_example6.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_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_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.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_sequences_assignment_3.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_sequence_io_base.dir/build'. +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' +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution5 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_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_seed_and_extend_solution4 +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' +Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_seeds_example1 -[ 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_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_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend -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_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_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_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_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]: 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]: 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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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' +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_base Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_example1 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_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_5_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.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 +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_seeds_example1.dir/build.make 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]: 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 -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_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". +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". +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' 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". -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_6_solution.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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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_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". 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_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_base.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seeds_solution1 -make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend -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". -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.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_assignment_3_solution.dir/DependInfo.cmake "--color=" +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". +[ 72%] 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_sequences_example_comparisons.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution1 -[ 74%] 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]: 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 -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build -make[3]: Entering 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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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]: 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_seed_and_extend_solution5.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_sequences_example_functionality1.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_sequences_example_conversions_move.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.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' -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_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_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_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' -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_seeds_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_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 -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_1_solution -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_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". -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3_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_seed_and_extend_solution6.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' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make 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' -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' -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_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +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_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". -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_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[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution4 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_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_4_solution +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_2_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_1_solution +[ 72%] Built target demo_tutorial_seed_and_extend_example7 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_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build -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' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_base -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build -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_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". -make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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' +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_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_sequences_assignment_2_solution.dir/build'. +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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build'. +[ 72%] Built target demo_tutorial_seed_and_extend_solution1 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". make[3]: Entering directory '/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]: 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 -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_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_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 -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build +[ 73%] Built target demo_tutorial_seed_and_extend_solution3 make[3]: Entering directory '/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_1_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_sequence_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend +[ 73%] Built target demo_tutorial_seed_and_extend_solution2 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_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_example_segments.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution4 -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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/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' -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend +[ 73%] Built target demo_tutorial_seed_and_extend_solution5 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.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=" +make[3]: Entering directory '/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' +make[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.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_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". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_5_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_sequences_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_sequences_assignment_3.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_comparisons -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". +[ 73%] Built target demo_tutorial_seed_and_extend_solution6 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend +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_example_comparisons.dir/DependInfo.cmake "--color=" +[ 73%] Built target demo_tutorial_seeds_example1 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend +[ 73%] Built target demo_tutorial_seeds_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_sequences_example_conversions_move.dir/DependInfo.cmake "--color=" +[ 74%] Built target demo_tutorial_sequence_io_base +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend 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 -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_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_6_solution -[ 74%] Built target demo_tutorial_sequence_io_example1 -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_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_sequences_example_conversions_copy.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_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_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_sequences_in_depth_assignment_exact_generous_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_sequences_example_functionality1.dir/DependInfo.cmake "--color=" +[ 74%] Built target demo_tutorial_sequence_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +[ 75%] Built target demo_tutorial_sequence_io_example1 +[ 75%] Built target demo_tutorial_sequences_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.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_example_comparisons.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_functionality1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 75%] Built target demo_tutorial_sequence_io_solution1 +[ 75%] Built target demo_tutorial_sequence_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/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_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_in_depth_assignment_exact_generous_solution.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]: 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/depend -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_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_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 -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_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_sequences_in_depth_base.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 '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' +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". +[ 75%] Built target demo_tutorial_sequence_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_sequences_in_depth_example_overflow.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_sequence_io_solution4.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_simple_rna_seq_base.dir/DependInfo.cmake "--color=" +[ 75%] Built target demo_tutorial_sequences_assignment_2_solution +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_assignment1.dir/DependInfo.cmake "--color=" +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[3]: Entering directory '/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 -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_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_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend +[ 75%] Built 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_simple_rna_seq_genequant_assignment2.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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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_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". +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_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_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_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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_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_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_sequences_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_sequences_assignment_5_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_base +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_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build 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". -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build -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_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". +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.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". +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_comparisons +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_6_solution +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". +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_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[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". +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". +[ 75%] Built target demo_tutorial_sequences_assignment_3_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_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". Consolidate compiler generated dependencies of 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_simple_rna_seq_base.dir/DependInfo.cmake "--color=" +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' +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality1 +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_sequences_example_conversions_copy -[ 74%] Built target demo_tutorial_sequence_io_solution1 -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_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". +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_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". +make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make 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' +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_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_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". +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/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_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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_genequant_assignment1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_segments +Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_base 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 -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[3]: Entering directory '/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_6_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_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.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_sequence_io_solution3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sequences_assignment_3 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality2 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_segments +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' +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' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sequences_assignment_3_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_example_functionality1.dir/build'. +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' -[ 74%] Built target demo_tutorial_sequences_assignment_4_solution -[ 74%] Built target demo_tutorial_sequences_assignment_5_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build -[ 74%] Built target demo_tutorial_sequence_io_solution2 -[ 75%] Built target demo_tutorial_sequences_assignment_1_solution -[ 75%] Built target demo_tutorial_sequences_assignment_2_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_simple_rna_seq_genequant_assignment2.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of 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' -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". -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_sequences_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_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[3]: Entering directory '/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 -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build +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". +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment2 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_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". -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". -[ 75%] Built target demo_tutorial_sequence_io_solution4 -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 -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_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality2 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[3]: Entering directory '/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]: 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/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_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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.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_sequences_in_depth_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 -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_example_overflow +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment3 make[3]: Entering directory '/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_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend -[ 75%] Built target demo_tutorial_sequences_base -[ 75%] Built target demo_tutorial_sequence_io_solution3 -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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_example_overflow -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_base -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_genequant_solution1.dir/DependInfo.cmake "--color=" -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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 75%] Built target demo_tutorial_sequences_example_comparisons -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]: 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_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_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_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' -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_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build -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". -[ 76%] Built target demo_tutorial_sequences_assignment_6_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_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_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 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment4 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment5 +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_assignment4.dir/build.make 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_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_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.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_in_depth_assignment_exact_generous_solution.dir/build'. +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' -[ 77%] Built target demo_tutorial_sequences_example_functionality2 make[3]: Entering directory '/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]: 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_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". -[ 76%] Built target demo_tutorial_sequences_example_conversions_move -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". +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[3]: Entering directory '/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' +make[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sequences_assignment_4_solution +[ 75%] Built target demo_tutorial_sequences_base +[ 75%] Built target demo_tutorial_sequences_assignment_5_solution +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_base +[ 76%] Built target demo_tutorial_sequences_assignment_6_solution +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 -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 -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" -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[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_genequant_solution5.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_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" -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 -[ 77%] Built target demo_tutorial_sequences_example_functionality1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 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' -[ 77%] Built target demo_tutorial_sequences_example_segments -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment2 -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' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" -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 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_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_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_simple_rna_seq_genequant_assignment5.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_example_conversions_copy +[ 76%] Built target demo_tutorial_sequences_in_depth_base +[ 76%] Built target demo_tutorial_sequences_example_comparisons +[ 76%] Built target demo_tutorial_sequences_example_conversions_move +[ 76%] Built target demo_tutorial_sequences_example_functionality1 +[ 76%] Built target demo_tutorial_sequences_example_segments +[ 76%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution +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[3]: Entering directory '/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' -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_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_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_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". -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment3 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend +[ 77%] Built target demo_tutorial_sequences_example_functionality2 +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 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]: 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". -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/depend +[ 78%] Built target demo_tutorial_sequences_in_depth_example_overflow +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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_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_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". 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 -[ 77%] Built target demo_tutorial_sequences_in_depth_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_string_sets_assignment_2.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -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". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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". 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[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' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_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". make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend 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 -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.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_assignment_2_solution.dir/DependInfo.cmake "--color=" -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_simple_rna_seq_genequant_solution1 -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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend +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". +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend +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' -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". -[ 77%] Built target demo_tutorial_sequences_in_depth_example_overflow -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". -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend -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 -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_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_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". -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_assignment5 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment4 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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' -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 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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[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_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build 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". -[ 77%] Built 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_simple_rna_seq_genequant_assignment3.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 -[ 77%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.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_simple_rna_seq_interval_tree -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution5 -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 -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' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 +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". +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend +[ 78%] Built target demo_tutorial_simple_rna_seq_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.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_simple_rna_seq_genequant_assignment5.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]: 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 -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build -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". -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution4 -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_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_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' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.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/build make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/depend -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". -make[3]: Entering directory '/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'. -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". -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_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". 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' -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". -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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 -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". -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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_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_vcf_io_example1.dir/DependInfo.cmake "--color=" -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution1 +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_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". +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 "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". +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 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution4 +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 +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". +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 +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". +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_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_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". +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_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_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". 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[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' -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_1_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality +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_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". +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_simple_rna_seq_genequant_solution5 make[3]: Entering directory '/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_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]: 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_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_solution4.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". +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_1_solution +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". +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality 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_functionality_2 -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". +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_interval_tree +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_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_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". +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution +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_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". +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution 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_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". 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". +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_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". 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]: 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_2_solution +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 +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". +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 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality_2 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_2 +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_example_functionality.dir/build.make 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' -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_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build 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 -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_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build -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". -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution -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_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". +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 +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 +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]: 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_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_string_sets_assignment_2.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 -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_string_sets_assignment_2_solution.dir/build'. 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[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/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 -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' +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_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_string_sets_example_functionality.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]: 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/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_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_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". -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 -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". -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_string_sets_example_functionality_2.dir/build'. +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[3]: Entering directory '/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' Consolidate compiler generated dependencies of target demo_tutorial_string_sets_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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". -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_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[3]: Entering directory '/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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_vcf_io_base +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_iterators +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution1 -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 -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 78%] Built target demo_tutorial_string_sets_assignment_1_solution -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 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 -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.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_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make 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' +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[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 -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 -[ 78%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 -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_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". -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build +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]: Entering directory '/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_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' -[ 80%] Built target demo_tutorial_string_sets_example_functionality -[ 80%] Built target demo_tutorial_string_sets_assignment_2_solution -[ 80%] Built target demo_tutorial_simple_rna_seq_interval_tree -[ 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' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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_vcf_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_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_string_sets_example_iterators.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_string_sets_example_functionality_2 -[ 80%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 -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 -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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]: 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' +make[3]: Entering directory '/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' +make[3]: Entering directory '/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' +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 +[ 78%] 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' +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' +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +[ 78%] Built target demo_tutorial_string_sets_example_functionality +make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/depend +[ 78%] Built target demo_tutorial_simple_rna_seq_interval_tree +[ 78%] Built target demo_tutorial_string_sets_assignment_1_solution +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +[ 78%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +[ 79%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution +[ 80%] Built target demo_tutorial_string_sets_assignment_2_solution +[ 80%] Built target demo_tutorial_string_sets_assignment_2 +[ 80%] Built target demo_tutorial_vcf_io_example1 +[ 80%] Built target demo_tutorial_string_sets_base +[ 80%] Built target demo_tutorial_vcf_io_base +[ 80%] Built target demo_tutorial_string_sets_example_functionality_2 +[ 80%] Built target demo_tutorial_vcf_io_solution1 make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend -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_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend +[ 81%] Built target demo_tutorial_string_sets_example_iterators 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=" -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_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend 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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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_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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +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_annotation_converter.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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[3]: Entering directory '/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_arg_align.dir/DependInfo.cmake "--color=" 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_library_size.dir/DependInfo.cmake "--color=" 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_file_format.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_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_bamutil.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=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.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_readwrite.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_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.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_file_speed.dir/DependInfo.cmake "--color=" -[ 80%] Built target demo_tutorial_vcf_io_base -[ 80%] Built target demo_tutorial_string_sets_base -[ 80%] 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_filter_sam.dir/DependInfo.cmake "--color=" +[ 81%] Built target demo_tutorial_vcf_io_solution2 +[ 81%] Built target demo_tutorial_vcf_io_solution3 make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend -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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.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_filter_sam.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_gff2gtf.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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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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_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_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". +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_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/depend 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_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/depend -[ 81%] Built target demo_tutorial_string_sets_example_iterators -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/depend -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 -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend -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_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_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_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/depend -[ 81%] Built target demo_tutorial_vcf_io_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.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_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_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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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dependencies of target demo_unassigned_or_unused_alphabet +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". +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_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 -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build +Dependencies file 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demo_unassigned_or_unused_arg_align +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". make[3]: Entering 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' +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". +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_unassigned_or_unused_bam_library_size +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_speed +Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node +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_unassigned_or_unused_file_format +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bamutil +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_print_alignments +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]: 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_unassigned_or_unused_benchmark_stream +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_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build +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 +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 -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make 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.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_gff2gtf +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 -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_filter_sam +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_find_wild +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_graph_hmm_silent +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_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". +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[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_readwrite.dir/build.make 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_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". +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". +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". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find +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]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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]: 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -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_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". +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' make[3]: Entering 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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". +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[3]: Entering 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_workflows_knime_node.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_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_file_readwrite.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_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_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 +make[3]: Entering 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_file_format.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]: 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_lcp +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: 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[3]: Entering 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' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_mums +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find_stringset +make[3]: Entering 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_find_wild.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_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 -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make 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_index_lcp.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_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build +[ 82%] Built target demo_unassigned_or_unused_alphabet +make[3]: Entering 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' +[ 82%] Built target demo_unassigned_or_unused_annotation_converter +[ 82%] Built target demo_unassigned_or_unused_bam_library_size +[ 82%] Built target demo_unassigned_or_unused_arg_align +[ 83%] Built target demo_tutorial_workflows_knime_node +[ 83%] Built target demo_unassigned_or_unused_bam_print_alignments +[ 83%] Built target demo_unassigned_or_unused_benchmark_stream +[ 83%] Built target demo_unassigned_or_unused_benchmark_stream_write +[ 83%] Built target demo_unassigned_or_unused_file_format +[ 83%] Built target demo_unassigned_or_unused_bamutil +make[3]: Entering 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_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/depend 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 +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/depend +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_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.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_node_predicate.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_index_mums.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 -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' -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_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/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_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_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.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_index_qgram_counts.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_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_unassigned_or_unused_index_sufarray.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_index_qgram_counts.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_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend 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_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.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_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_unassigned_or_unused_iterator.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_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.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_minimapper.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_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.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_modifier_modreverse.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 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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[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_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/depend +[ 83%] Built target demo_unassigned_or_unused_file_readwrite +[ 83%] Built target demo_unassigned_or_unused_file_speed +[ 83%] Built target demo_unassigned_or_unused_gff2gtf +[ 84%] Built target demo_unassigned_or_unused_graph_hmm_silent +[ 83%] Built target demo_unassigned_or_unused_filter_sam +[ 84%] Built target demo_unassigned_or_unused_find_wild 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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.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_parse_lm_stellar.dir/DependInfo.cmake "--color=" -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_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_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_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". -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". +[ 84%] Built target demo_unassigned_or_unused_index_find make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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". -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". -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 -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 -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_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". +[ 84%] Built target demo_unassigned_or_unused_index_lcp +[ 86%] Built target demo_unassigned_or_unused_index_mums make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 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"/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_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.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_sample_seqs.dir/DependInfo.cmake "--color=" -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_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_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_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/depend +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_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_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_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_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d" is newer than depends file 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"/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_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 -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 +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_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_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/depend 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_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". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build.make 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demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/depend -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_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". 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_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". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" 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_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_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_unassigned_or_unused_soft_to_hard_masking.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_sequence_length.dir/DependInfo.cmake "--color=" -Dependencies file 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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 +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_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_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 -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 +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". +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_iterator +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". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modreverse +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_qgram_counts +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". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modview +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_index_supermaxrepeats +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/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_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". -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". -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_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_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". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_node_predicate +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Dependencies file 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+Consolidate compiler generated dependencies of target demo_unassigned_or_unused_minimapper +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_sufarray +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_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". +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/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]: 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". 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". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_nested +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_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_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". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_qgram_counts -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution3 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find_stringset -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_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". +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". +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_rooted_iterator +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". 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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +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' -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". -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 -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 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_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". -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_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_parse_lm_stellar 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_index_find_stringset.dir/build'. +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sam2svg +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_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.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_solution3.dir/build'. +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_qgram_counts.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_minimapper -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_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". -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". -[ 81%] Built target demo_unassigned_or_unused_index_find_stringset -[ 81%] Built target demo_tutorial_vcf_io_solution3 -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 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_supermaxrepeats 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_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build -[ 81%] Built target demo_unassigned_or_unused_index_qgram_counts -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' -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]: 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' +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -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 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_iterator -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_graph_hmm_silent -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_example1 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_soft_to_hard_masking -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_seeds -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sequence_length -Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_node_predicate -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_alphabet -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream_write -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_mums -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modview -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_library_size -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_parse_lm_stellar +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' +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_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". +make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build +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". Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sample_seqs -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sam2svg -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_filter_sam +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build +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 -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_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.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_unassigned_or_unused_tutorial_sequence_count_generic_characters.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_tutorial_file_io_stream_compression_formats.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_unassigned_or_unused_bam_print_alignments -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_unassigned_or_unused_benchmark_stream -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' -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_bamutil -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find -make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_solution1 -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_lcp -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modreverse -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]: 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 -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 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sequence_length +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_soft_to_hard_masking +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_segmentalignment +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_seeds 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_supermaxrepeats.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_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_modifier_modreverse.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_sample_seqs.dir/build.make 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_modifier_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_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.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_rooted_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_unassigned_or_unused_tutorial_file_io_solution1 +make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.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_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_unassigned_or_unused_minimapper.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 -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build +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_file_io_mmap_string_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_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_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build -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 -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.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 -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]: 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' -make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.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 -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 -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.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 -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_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 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 "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". +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 -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_mmap_string_example.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_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_unassigned_or_unused_sam2svg.dir/build'. 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 -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_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". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_speed -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_nested -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_find_wild -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_sufarray 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_unassigned_or_unused_file_format -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". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_arg_align -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build +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 make[3]: Entering directory '/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'. -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_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_tutorial_file_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_unassigned_or_unused_file_readwrite -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". -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_rooted_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_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' -make[3]: Nothing to be done for '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_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[3]: Entering 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]: 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[3]: Entering 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_sequence_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_unassigned_or_unused_iterator +[ 86%] Built target demo_unassigned_or_unused_index_sufarray +[ 86%] Built target demo_unassigned_or_unused_index_qgram_counts +[ 86%] Built target demo_unassigned_or_unused_index_node_predicate +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_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_sequence_count_characters.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 -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 make[3]: Entering directory '/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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 86%] Built target demo_unassigned_or_unused_parse_lm_stellar +[ 86%] Built target demo_unassigned_or_unused_modifier_modview +[ 86%] Built target demo_unassigned_or_unused_minimapper +[ 86%] Built target demo_unassigned_or_unused_modifier_nested +[ 86%] Built target demo_unassigned_or_unused_index_supermaxrepeats +[ 87%] Built target demo_unassigned_or_unused_rooted_iterator +[ 87%] Built target demo_unassigned_or_unused_modifier_modreverse +[ 87%] Built target demo_unassigned_or_unused_sam2svg +[ 87%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 +[ 88%] Built target demo_unassigned_or_unused_sample_seqs +[ 88%] Built target demo_unassigned_or_unused_soft_to_hard_masking +[ 88%] Built target demo_unassigned_or_unused_seeds +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 +[ 88%] Built target demo_unassigned_or_unused_segmentalignment +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[3]: Entering 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_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build -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". -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.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_tutorial_sequence_replace_as.dir/DependInfo.cmake "--color=" +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 -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 +[ 88%] Built target demo_unassigned_or_unused_sequence_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 '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[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build'. -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_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' -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_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.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_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" +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[3]: Entering 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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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 -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' -[ 81%] Built target demo_unassigned_or_unused_minimapper -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" +[ 88%] 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' -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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 -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_reader_demo.dir/DependInfo.cmake "--color=" +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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build'. -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[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_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.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_tutorial_file_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_unassigned_or_unused_tutorials_custim_io_solution2.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_unassigned_or_unused_graph_hmm_silent.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_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_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_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[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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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/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' -make[3]: Nothing to be done for '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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[3]: Entering 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]: 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/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' -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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend +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_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_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". make[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend +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_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_tutorial_sequence_count_characters 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_tutorial_sequence_count_generic_characters +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats make[3]: Entering 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'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +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 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_gff2gtf.dir/build'. +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". 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_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_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_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_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". +Dependencies file 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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_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_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". +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 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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 "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". +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 "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/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". +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". +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 "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 "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". +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". +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_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[3]: Entering 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]: 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/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/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". +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_tutorial_sequence_replace_as +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +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". 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_mums.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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bamutil.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[3]: Entering 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'. +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". +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 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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]: Entering 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'. +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' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build'. +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_example1 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +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_tutorials_custim_io_solution2 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_example1.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_benchmark_stream.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/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=" +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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_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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_unassigned_or_unused_index_supermaxrepeats -[ 81%] Built target demo_tutorial_vcf_io_example1 -[ 81%] Built target demo_unassigned_or_unused_index_node_predicate -[ 81%] Built target demo_unassigned_or_unused_bam_print_alignments -[ 81%] Built target demo_tutorial_workflows_knime_node -[ 81%] Built target demo_unassigned_or_unused_bam_library_size -[ 81%] Built target demo_unassigned_or_unused_gff2gtf -[ 81%] Built target demo_unassigned_or_unused_graph_hmm_silent -[ 82%] Built target demo_unassigned_or_unused_alphabet -[ 83%] Built target demo_unassigned_or_unused_modifier_modreverse -[ 81%] Built target demo_unassigned_or_unused_seeds -[ 83%] Built target demo_unassigned_or_unused_bamutil -[ 83%] Built target demo_unassigned_or_unused_benchmark_stream_write -[ 83%] Built target demo_unassigned_or_unused_filter_sam -[ 83%] Built target demo_unassigned_or_unused_index_find -[ 83%] Built target demo_unassigned_or_unused_index_lcp -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_characters -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_annotation_converter -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' 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 bisar make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_unassigned_or_unused_index_mums -make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.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 -[ 84%] Built target demo_unassigned_or_unused_modifier_modview -[ 84%] Built target demo_unassigned_or_unused_parse_lm_stellar -[ 86%] Built target demo_unassigned_or_unused_sample_seqs -[ 86%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 -[ 86%] Built target demo_unassigned_or_unused_sam2svg -[ 86%] Built target demo_unassigned_or_unused_iterator -[ 87%] Built target demo_unassigned_or_unused_benchmark_stream -[ 87%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 -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 -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 "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]: Entering 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_sequence_replace_as.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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target alf +Consolidate compiler generated dependencies of target casbar make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_sequence_length -[ 87%] Built target demo_unassigned_or_unused_soft_to_hard_masking -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_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_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.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_unassigned_or_unused_tutorial_sequence_replace_as.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_unassigned_or_unused_segmentalignment.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/build +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 -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 +Consolidate compiler generated dependencies of target four2three +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 -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 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 -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 -f apps/bs_tools/CMakeFiles/casbar.dir/build.make 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/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.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_generic_characters.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 -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 +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats make[3]: Entering 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_stream_compression_formats.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' +Consolidate compiler generated dependencies of target dfi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -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". -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 -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]: 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_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.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_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" -[ 88%] Built target demo_unassigned_or_unused_annotation_converter -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 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+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=" -[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -[ 88%] Built target demo_unassigned_or_unused_file_readwrite -[ 88%] Built target demo_unassigned_or_unused_file_format 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_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend -cd 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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_solution3.dir/DependInfo.cmake "--color=" -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build'. +make[3]: 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"--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.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' +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/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=" +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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[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 -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.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/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=" -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_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' -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.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/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=" -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/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' -make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend +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 -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend +Consolidate compiler generated dependencies of target compute_gain 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_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_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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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". +make[3]: Leaving 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 -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/build +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo +[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 +[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +[ 90%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as +[ 90%] Built target casbar +[ 90%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 +[ 91%] Built target alf +[ 91%] Built target bisar +[ 92%] Built target four2three +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 -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend +make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -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_tutorial_sequence_replace_as -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_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". +make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend 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]: 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_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.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/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=" -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 "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 -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 -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 -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". -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_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_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". -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 -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend -make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.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/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 -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend +make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.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/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 "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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +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 make[3]: Entering 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/depend -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 "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". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/depend +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.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=" -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 +make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/depend +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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 "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". +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_simulator.dir/DependInfo.cmake "--color=" -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 +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend -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 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 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+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". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.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/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=" +[ 92%] Built target dfi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend -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". -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.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_tests.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 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/compiler_depend.internal". -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". +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/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/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 "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". -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/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 -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend 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/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/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/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". -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/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 "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/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/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend -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". -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend -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/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/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/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". 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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/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]: Entering 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' -make[3]: Entering 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'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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/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=" -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/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". 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"/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". -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 -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/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". -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -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". -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as -Consolidate compiler generated dependencies of target rabema_evaluate -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target rabema_build_gold_standard +Consolidate compiler generated dependencies of target fiona_illumina +make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/build +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target param_chooser +Consolidate compiler generated dependencies of target gustaf +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build +Consolidate compiler generated dependencies of target fx_fastq_stats +Consolidate compiler generated dependencies of target insegt +Consolidate compiler generated dependencies of target fx_bam_coverage make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +Consolidate compiler generated dependencies of target mason_simulator +[ 92%] Built target compute_gain make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target rabema_prepare_sam -Consolidate compiler generated dependencies of target fx_bam_coverage -Consolidate compiler generated dependencies of target fx_fastq_stats -Consolidate compiler generated dependencies of target mason_splicing -Consolidate compiler generated dependencies of target bisar -Consolidate compiler generated dependencies of target dfi -Consolidate compiler generated dependencies of target gustaf -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_example1 -Consolidate compiler generated dependencies of target mason_materializer -Consolidate compiler generated dependencies of target roi_feature_projection -Consolidate compiler generated dependencies of target fiona -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/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/build -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". -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build Consolidate compiler generated dependencies of target mason_frag_sequencing Consolidate compiler generated dependencies of target mason_tests -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 -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_materializer 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/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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[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' -Consolidate compiler generated dependencies of target insegt +make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/build 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' +Consolidate compiler generated dependencies of target gustaf_mate_joining +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". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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[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 casbar -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_solution1 -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[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 -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 -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 -f apps/bs_tools/CMakeFiles/casbar.dir/build.make 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[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 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.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/bs_tools/CMakeFiles/bisar.dir/build'. +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' +Consolidate compiler generated dependencies of target bam2roi +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". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build'. +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 -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 'apps/param_chooser/CMakeFiles/param_chooser.dir/build'. +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[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/insegt/CMakeFiles/insegt.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -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 -make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build -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 -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/build make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.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/alf/CMakeFiles/alf.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_variator.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 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/bs_tools/CMakeFiles/casbar.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 -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]: 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]: 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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona_illumina.dir/build'. make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make 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 -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_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 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.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' make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build 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/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.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/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/gustaf/CMakeFiles/gustaf.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_bam_coverage.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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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'. +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]: 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' +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". 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/mason2/CMakeFiles/mason_variator.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/mason2/CMakeFiles/mason_simulator.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]: 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/fiona/CMakeFiles/fiona.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' +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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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 'apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build'. -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]: 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/fiona/CMakeFiles/fiona_illumina.dir/build'. +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[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]: Leaving 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' -make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend -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_solution2 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_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]: 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/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 -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_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.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 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/depend -make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.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 '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 -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 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution4 +Consolidate compiler generated dependencies of 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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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' -make[3]: Entering 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'. +[ 92%] Built target fiona +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build +[ 92%] Built target fx_fastq_stats +[ 92%] Built target fiona_illumina +[ 92%] Built target insegt +Consolidate compiler generated dependencies of target pair_align_lib +[ 92%] Built target fx_bam_coverage +[ 92%] Built target gustaf +make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend +[ 93%] Built target mason_frag_sequencing make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 94%] Built target mason_variator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +[ 94%] Built target mason_genome +[ 94%] Built target gustaf_mate_joining +[ 94%] Built target mason_methylation +[ 94%] Built target micro_razers +[ 94%] Built target mason_materializer +[ 94%] Built target mason_splicing +[ 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/rabema/CMakeFiles/rabema_prepare_sam.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' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build'. make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. -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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target mason_genome -[ 90%] Built target fiona_illumina -make[3]: Entering 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' +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/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' -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' -[ 91%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -[ 92%] Built target demo_unassigned_or_unused_tutorials_custim_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/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 -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend +[ 94%] Built target roi_plot_thumbnails +[ 94%] Built target mason_tests +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend +make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend +make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.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 'apps/ngs_roi/CMakeFiles/bam2roi.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/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.dir/build.make apps/razers3/CMakeFiles/razers3.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_tutorials_custim_io_solution4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target four2three -[ 94%] Built target mason_frag_sequencing -[ 90%] Built target mason_simulator -[ 90%] Built target gustaf -[ 90%] Built target mason_tests -[ 95%] Built target pair_align_lib -[ 95%] Built target mason_variator -[ 90%] Built target mason_methylation -[ 90%] Built target gustaf_mate_joining -[ 90%] Built target compute_gain -[ 90%] Built target mason_materializer -[ 90%] Built target insegt -[ 90%] Built target rabema_build_gold_standard -[ 90%] Built target test_funcs_param_chooser -[ 90%] Built target fiona -[ 90%] Built target alf -[ 90%] Built target bisar -[ 95%] Built target mason_splicing -[ 90%] Built target dfi -[ 90%] Built target fx_fastq_stats -[ 90%] Built target fx_bam_coverage -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend -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". -[ 90%] 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_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_do_search.dir/DependInfo.cmake "--color=" 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[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" 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' -[ 90%] Built target param_chooser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/depend -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/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/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=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/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 -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/depend +make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/depend +[ 94%] Built target bam2roi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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/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". -make[3]: Entering 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/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/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=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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/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". +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend -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/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.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 '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' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -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/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". -make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend -[ 95%] Built target bam2roi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -[ 95%] Built target rabema_evaluate -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/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/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' -make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo -[ 95%] Built 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/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=" -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' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" -[ 95%] Built target roi_plot_thumbnails -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend -make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.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/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=" -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 -make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.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' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_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/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/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 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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_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/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/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_do_search.dir/do_search.cpp.o.d" is newer than depends file 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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/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/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". 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/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". -[ 96%] Built target roi_feature_projection -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/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/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/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". +make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend +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". 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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/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/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/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/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d" is newer than 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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/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/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/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/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/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/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/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/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". -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". -Consolidate compiler generated dependencies of target sgip -Consolidate compiler generated dependencies of target s4_join -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/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 -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make 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/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +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 seqan_tcoffee -Consolidate compiler generated dependencies of target sak -Consolidate compiler generated dependencies of target samcat Consolidate compiler generated dependencies of target s4_search -Consolidate compiler generated dependencies of target razers -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/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/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". +Consolidate compiler generated dependencies of target s4_join +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.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 rep_sep +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 +Consolidate compiler generated dependencies of target razers3_quality2prob +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/param_chooser.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/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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target razers3_quality2prob -Consolidate compiler generated dependencies of target seqcons2 -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". +Consolidate compiler generated dependencies of target test_funcs_param_chooser 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 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 96%] Built target pair_align_lib +Consolidate compiler generated dependencies of target razers +Consolidate compiler generated dependencies of target razers3 make[3]: 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[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]: 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/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build -make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/build +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build -make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build -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 -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build +make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build +make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build +make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.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 +make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build +Consolidate compiler generated dependencies of target samcat +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]: 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' +Consolidate compiler generated dependencies of target sgip 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]: 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]: 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/searchjoin/CMakeFiles/s4_search.dir/build.make 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/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/searchjoin/CMakeFiles/s4_join.dir/build'. +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/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 -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build -make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/build make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.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[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]: 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' 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]: 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[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]: 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/seqcons2/CMakeFiles/seqcons2.dir/build'. +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' 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/rep_sep/CMakeFiles/rep_sep.dir/build'. +make[3]: Nothing to be done for 'apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. +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[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+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.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 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/samcat/CMakeFiles/samcat.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/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/sgip/CMakeFiles/sgip.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target razers3 -[ 97%] Built target s4_join -[ 97%] Built target seqan_tcoffee -[ 97%] Built target s4_search -Consolidate compiler generated dependencies of target rabema_do_search -Consolidate compiler generated dependencies of target pair_align -[ 98%] Built target sak -[ 98%] Built target sgip +[ 96%] Built target rabema_build_gold_standard +[ 96%] Built target param_chooser +[ 97%] Built target rabema_prepare_sam +[ 97%] Built target rabema_evaluate +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' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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 -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.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/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 -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.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 'apps/seqcons2/CMakeFiles/seqcons2.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_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build -Consolidate compiler generated dependencies of target sam2matrix +[ 97%] Built target razers3_simulate_reads +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +[ 97%] Built target rabema_do_search +[ 97%] Built target rep_sep [ 97%] Built target razers +[ 97%] Built target s4_search +[ 97%] Built target test_funcs_param_chooser +[ 97%] Built target sam2matrix +[ 97%] Built target samcat +[ 97%] Built target seqan_tcoffee +[ 97%] Built target s4_join +[ 97%] Built target sak +[ 97%] Built target razers3 +[ 97%] Built target razers3_quality2prob +[ 98%] Built target sgip +make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/depend +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 +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_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/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/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=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +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". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /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=" +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/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/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/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/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". [ 98%] Built target seqcons2 -[ 98%] Built target rep_sep +Consolidate compiler generated dependencies of target splazers +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/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". 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/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 -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build +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". Consolidate compiler generated dependencies of target stellar -[ 98%] Built target samcat -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/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". -make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/build -Consolidate compiler generated dependencies of target razers3_simulate_reads -[ 97%] Built target razers3_quality2prob +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/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' -make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/build -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/rabema/CMakeFiles/rabema_do_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 snp_store -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 "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 -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build +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]: 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/razers3/CMakeFiles/razers3_simulate_reads.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' 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]: 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' -[ 98%] Built target rabema_do_search +Consolidate compiler generated dependencies of target yara_mapper +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' +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 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]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target sam2matrix -[ 98%] Built target razers3_simulate_reads Consolidate compiler generated dependencies of target tree_recon -Consolidate compiler generated dependencies of target yara_indexer -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[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 +Consolidate compiler generated dependencies of target yara_indexer +make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.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_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build -make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/build -[ 98%] Built target pair_align -[ 98%] Built target snp_store -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/yara/CMakeFiles/yara_mapper.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target splazers 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/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/tree_recon/CMakeFiles/tree_recon.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] 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/yara/CMakeFiles/yara_mapper.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/yara/CMakeFiles/yara_indexer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target stellar -[ 98%] Built target tree_recon -[ 98%] Built target yara_indexer -Consolidate compiler generated dependencies of target splazers +[ 98%] Built target snp_store [100%] Built target yara_mapper -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/splazers/CMakeFiles/splazers.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target splazers +[100%] Built target tree_recon +[100%] Built target pair_align +[100%] Built target yara_indexer 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 -j42 test ARGS\+=--verbose ARGS\+=-j42 + cd obj-x86_64-linux-gnu && make -j20 test ARGS\+=--verbose ARGS\+=-j20 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 -j42 +/usr/bin/ctest --force-new-ctest-process --verbose -j20 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 @@ -301602,239 +301638,107 @@ 3: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 3: Test timeout computed to be: 10000000 test 4 - Start 4: test_test_align_simd_global_equal_length_avx2_host + Start 4: test_test_align_simd_global_variable_length -4: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_equal_length_avx2 +4: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_variable_length 4: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 4: Test timeout computed to be: 10000000 test 5 - Start 5: test_test_align_simd_global_variable_length + Start 5: test_test_align_simd_global_variable_length_sse4_host -5: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_variable_length +5: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_variable_length_sse4 5: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 5: Test timeout computed to be: 10000000 test 6 - Start 6: test_test_align_simd_global_variable_length_sse4_host + Start 6: test_test_align_simd_local_equal_length -6: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_variable_length_sse4 +6: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_equal_length 6: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 6: Test timeout computed to be: 10000000 test 7 - Start 7: test_test_align_simd_global_variable_length_avx2_host + Start 7: test_test_align_simd_local_equal_length_sse4_host -7: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_global_variable_length_avx2 +7: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_equal_length_sse4 7: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 7: Test timeout computed to be: 10000000 test 8 - Start 8: test_test_align_simd_local_equal_length + Start 8: test_test_align_simd_local_variable_length -8: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_equal_length +8: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_variable_length 8: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 8: Test timeout computed to be: 10000000 test 9 - Start 9: test_test_align_simd_local_equal_length_sse4_host + Start 9: test_test_align_simd_local_variable_length_sse4_host -9: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_equal_length_sse4 +9: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_variable_length_sse4 9: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align 9: Test timeout computed to be: 10000000 test 10 - Start 10: test_test_align_simd_local_equal_length_avx2_host + Start 10: test_test_align_extend -10: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_equal_length_avx2 -10: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align +10: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_extend +10: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend 10: Test timeout computed to be: 10000000 test 11 - Start 11: test_test_align_simd_local_variable_length + Start 11: test_align_parallel_data_structures -11: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_variable_length -11: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align +11: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_data_structures +11: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 11: Test timeout computed to be: 10000000 test 12 - Start 12: test_test_align_simd_local_variable_length_sse4_host + Start 12: test_test_align_parallel_interface -12: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_variable_length_sse4 -12: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align +12: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_interface +12: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 12: Test timeout computed to be: 10000000 test 13 - Start 13: test_test_align_simd_local_variable_length_avx2_host + Start 13: test_test_align_parallel_interface_sse4_host -13: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_simd_local_variable_length_avx2 -13: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align +13: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_interface_sse4 +13: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 13: Test timeout computed to be: 10000000 test 14 - Start 14: test_test_align_extend + Start 14: test_test_align_parallel_algorithm -14: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_extend -14: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend +14: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_algorithm +14: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 14: Test timeout computed to be: 10000000 test 15 - Start 15: test_align_parallel_data_structures + Start 15: test_test_align_parallel_algorithm_sse4_host -15: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_data_structures +15: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_algorithm_sse4 15: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 15: Test timeout computed to be: 10000000 test 16 - Start 16: test_test_align_parallel_interface + Start 16: test_test_align_profile -16: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_interface -16: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel +16: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_profile +16: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile 16: Test timeout computed to be: 10000000 test 17 - Start 17: test_test_align_parallel_interface_sse4_host + Start 17: test_test_align_split -17: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_interface_sse4 -17: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel +17: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_split +17: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split 17: Test timeout computed to be: 10000000 test 18 - Start 18: test_test_align_parallel_interface_avx2_host + Start 18: test_test_alignment_free -18: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_interface_avx2 -18: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel +18: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_alignment_free +18: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free 18: Test timeout computed to be: 10000000 test 19 - Start 19: test_test_align_parallel_algorithm + Start 19: test_test_arg_parse -19: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_algorithm -19: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel +19: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_arg_parse +19: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse 19: Test timeout computed to be: 10000000 test 20 - Start 20: test_test_align_parallel_algorithm_sse4_host + Start 20: test_test_arg_parse_version_check -20: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_algorithm_sse4 -20: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel +20: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_arg_parse_version_check +20: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse 20: Test timeout computed to be: 10000000 -test 21 - Start 21: test_test_align_parallel_algorithm_avx2_host - -21: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_parallel_algorithm_avx2 -21: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel -21: Test timeout computed to be: 10000000 -test 22 - Start 22: test_test_align_profile - -22: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_profile -22: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile -22: Test timeout computed to be: 10000000 -test 23 - Start 23: test_test_align_split - -23: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_align_split -23: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split -23: Test timeout computed to be: 10000000 -test 24 - Start 24: test_test_alignment_free - -24: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_alignment_free -24: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free -24: Test timeout computed to be: 10000000 -test 25 - Start 25: test_test_arg_parse - -25: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_arg_parse -25: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse -25: Test timeout computed to be: 10000000 -test 26 - Start 26: test_test_arg_parse_version_check - -26: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_arg_parse_version_check -26: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse -26: Test timeout computed to be: 10000000 -test 27 - Start 27: test_test_bam_io - -27: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bam_io -27: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io -27: Test timeout computed to be: 10000000 -test 28 - Start 28: test_test_basic_exception - -28: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_exception -28: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -28: Test timeout computed to be: 10000000 -test 29 - Start 29: test_test_basic_metaprogramming - -29: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_metaprogramming -29: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -29: Test timeout computed to be: 10000000 -test 30 - Start 30: test_test_basic_fundamental - -30: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_fundamental -30: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -30: Test timeout computed to be: 10000000 -test 31 - Start 31: test_test_basic_concept - -31: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_concept -31: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -31: Test timeout computed to be: 10000000 -test 32 - Start 32: test_test_basic_alphabet - -32: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_alphabet -32: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -32: Test timeout computed to be: 10000000 -test 33 - Start 33: test_test_basic_aggregate - -33: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_aggregate -33: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -33: Test timeout computed to be: 10000000 -test 34 - Start 34: test_test_basic_allocator - -34: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_allocator -34: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -34: Test timeout computed to be: 10000000 -test 35 - Start 35: test_test_basic_parallelism - -35: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_parallelism -35: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -35: Test timeout computed to be: 10000000 -test 36 - Start 36: test_test_basic_math - -36: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_math -36: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -36: Test timeout computed to be: 10000000 -test 37 - Start 37: test_test_basic_smart_pointer - -37: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_smart_pointer -37: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -37: Test timeout computed to be: 10000000 -test 38 - Start 38: test_test_basic_container - -38: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_container -38: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -38: Test timeout computed to be: 10000000 -test 39 - Start 39: test_test_basic_proxy - -39: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_proxy -39: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic -39: Test timeout computed to be: 10000000 -test 40 - Start 40: test_test_basic_iterator - -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 @@ -302270,26 +302174,6 @@ 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 @@ -302331,81 +302215,32 @@ 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 4: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 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: ************************************** +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_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_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 5: TEST SUITE tests 5: SEQAN_ENABLE_DEBUG == 1 5: SEQAN_ENABLE_TESTING == 1 @@ -302434,43 +302269,25 @@ 5: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 5: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 5: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -5: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -5: ************************************** -5: Total Tests: 24 -5: Skipped: 0 -5: Errors: 0 -5: ************************************** 6: TEST SUITE tests 6: SEQAN_ENABLE_DEBUG == 1 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: 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_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_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: ************************************** -6: Total Tests: 24 +6: Total Tests: 12 6: Skipped: 0 6: Errors: 0 6: ************************************** @@ -302479,32 +302296,20 @@ 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: 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_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_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: ************************************** -7: Total Tests: 24 +7: Total Tests: 12 7: Skipped: 0 7: Errors: 0 7: ************************************** @@ -302513,20 +302318,14 @@ 8: SEQAN_ENABLE_TESTING == 1 8: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 8: SEQAN_ASYNC_IO == 1 -8: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -8: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +8: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 8: ************************************** -8: Total Tests: 12 +8: Total Tests: 6 8: Skipped: 0 8: Errors: 0 8: ************************************** @@ -302535,11710 +302334,11115 @@ 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: 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_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_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: ************************************** -9: Total Tests: 12 +9: Total Tests: 6 9: Skipped: 0 9: Errors: 0 9: ************************************** -10: TEST SUITE tests +10: TEST SUITE test_align_extend 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: test_align_extend_simple OK +10: test_align_extend_simple_infixes_recomp OK +10: test_align_extend_banded OK +10: test_align_extend_xdrop OK +10: test_align_extend_xdrop_banded OK +10: test_align_extend_semiglobal OK 10: ************************************** -10: Total Tests: 12 +10: Total Tests: 6 10: Skipped: 0 10: Errors: 0 10: ************************************** -11: TEST SUITE tests +11: TEST SUITE test_align_parallel_data_structures 11: SEQAN_ENABLE_DEBUG == 1 11: SEQAN_ENABLE_TESTING == 1 11: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 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: ************************************** +11: test_align_parallel_wavefront_task_scheduler_construct OK +11: test_align_parallel_wavefront_task_scheduler_async OK 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: ************************************** +12: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK 13: TEST SUITE tests 13: SEQAN_ENABLE_DEBUG == 1 13: SEQAN_ENABLE_TESTING == 1 13: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 13: SEQAN_ASYNC_IO == 1 -13: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -13: ************************************** -13: Total Tests: 6 -13: Skipped: 0 -13: Errors: 0 -13: ************************************** -14: TEST SUITE test_align_extend +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +14: TEST SUITE test_align_parallel_algorithm 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 +14: test_align_parallel_wavefront_single_global_alignment OK +15: TEST SUITE test_align_parallel_algorithm 15: SEQAN_ENABLE_DEBUG == 1 15: SEQAN_ENABLE_TESTING == 1 15: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 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 +15: test_align_parallel_wavefront_single_global_alignment OK +16: TEST SUITE test_align_profile 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 -17: TEST SUITE tests +16: test_align_profile_profile_test OK +16: test_align_profile_align_profile_sequence OK +16: test_align_profile_align_profile_sequence_frac OK +16: test_align_profile_add_to_profile OK +16: test_align_profile_add_to_profile_multiple OK +16: test_align_profile_add_to_profile_banded OK +16: test_align_profile_add_to_profile_multiple_banded OK +16: ************************************** +16: Total Tests: 7 +16: Skipped: 0 +16: Errors: 0 +16: ************************************** +17: TEST SUITE test_align_split 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 -18: TEST SUITE tests +17: test_align_split_overlapping_reads_in_reference_align_unbanded OK +17: test_align_split_overlapping_contigs_in_reference_align_unbanded OK +17: test_align_split_insertion_in_reference_align_unbanded OK +17: test_align_split_overlapping_reads_in_reference_gaps_unbanded OK +17: test_align_split_overlapping_contigs_in_reference_gaps_unbanded OK +17: test_align_split_insertion_in_reference_gaps_unbanded OK +17: test_align_split_overlapping_reads_in_reference_align_banded OK +17: test_align_split_overlapping_contigs_in_reference_align_banded OK +17: test_align_split_insertion_in_reference_align_banded OK +17: test_align_split_overlapping_reads_in_reference_gaps_banded OK +17: test_align_split_overlapping_contigs_in_reference_gaps_banded OK +17: test_align_split_insertion_in_reference_gaps_banded OK +17: test_align_split_issue_1679 OK +17: ************************************** +17: Total Tests: 13 +17: Skipped: 0 +17: Errors: 0 +17: ************************************** +18: TEST SUITE test_alignment_free 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 -19: TEST SUITE test_align_parallel_algorithm +18: test_alignment_free_d2_dna OK +18: test_alignment_free_d2_dna5 OK +18: test_alignment_free_d2star_dna5 OK +18: test_alignment_free_d2z_dna5 OK +19: TEST SUITE test_arg_parse 19: SEQAN_ENABLE_DEBUG == 1 19: SEQAN_ENABLE_TESTING == 1 19: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 19: SEQAN_ASYNC_IO == 1 -19: test_align_parallel_wavefront_single_global_alignment OK -20: TEST SUITE test_align_parallel_algorithm +19: test_unset_value OK +19: test_unset_values OK +19: test_int_short_argument OK +19: test_int_long_argument OK +19: test_non_int_argument OK +19: test_int64_short_argument OK +19: test_int64_long_argument OK +19: test_non_int64_argument OK +19: test_double_short_argument OK +19: test_double_long_argument OK +19: test_non_double_argument OK +19: test_double_scientific_notation OK +19: test_string_short_argument OK +19: test_string_long_argument OK +19: test_string_missing_argument OK +19: test_string_list OK +19: test_min_max_double_values_in_range OK +19: test_min_max_double_values_to_small OK +19: test_min_max_double_values_to_big OK +19: test_min_max_int_values_in_range OK +19: test_min_max_int_values_to_small OK +19: test_min_max_int_values_to_big OK +19: test_allowed_values_contained OK +19: test_allowed_values_not_contained OK +19: test_input_file_short OK +19: test_input_file_long OK +19: test_input_file_missing OK +19: test_input_file_invalid_type OK +19: test_input_file_valid_type OK +19: test_input_file_extension OK +19: test_input_file_auto_file_ext_option OK +19: test_output_file_short OK +19: test_output_file_long OK +19: test_output_file_missing OK +19: test_output_file_invalid_type OK +19: test_output_file_valid_type OK +19: test_output_file_extension OK +19: test_output_file_extension_targz OK +19: test_output_file_explicit_extension_valid OK +19: test_output_file_explicit_extension_invalid OK +19: test_argument_string OK +19: test_argument_not_all_set OK +19: test_argument_double OK +19: test_argument_not_a_double OK +19: test_argument_auto_file_ext_option OK +19: test_int_list_option OK +19: test_double_list_option OK +19: test_double_list_option_not_enough_arguments OK +19: test_boolean_argument_on OK +19: test_boolean_argument_off OK +19: test_boolean_flags OK +19: test_combined_boolean_flags OK +19: test_long_short_flag_name OK +19: test_argument_string_type OK +19: test_argument_int_type OK +19: test_argument_int64_type OK +19: test_argument_double_type OK +19: test_argument_inputfile_type OK +19: test_argument_outputfile_type OK +19: test_argument_inputprefix_type OK +19: test_argument_outputprefix_type OK +19: test_argument_label OK +19: test_argument_invalid_cast OK +19: test_argument_min_max_boundaries OK +19: test_argument_valid_values OK +19: test_argument_valid_values_directories OK +19: test_argument_parser OK +19: test_parse_non_const_cstring OK +19: test_default_value OK +19: test_isDouble OK +19: test_isInt OK +19: test_arg_parse_ctd_support OK +19: ************************************** +19: Total Tests: 72 +19: Skipped: 0 +19: Errors: 0 +19: ************************************** + 1/407 Test #1: test_test_align ................................................................... Passed 0.09 sec + 2/407 Test #6: test_test_align_simd_local_equal_length ........................................... Passed 0.08 sec + 3/407 Test #7: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.08 sec + 4/407 Test #8: test_test_align_simd_local_variable_length ........................................ Passed 0.07 sec + 5/407 Test #9: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.07 sec + 6/407 Test #10: test_test_align_extend ............................................................ Passed 0.07 sec + 7/407 Test #16: test_test_align_profile ........................................................... Passed 0.05 sec +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_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: ************************************** + 8/407 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.09 sec +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: 24 +4: Skipped: 0 +4: Errors: 0 +4: ************************************** + 9/407 Test #4: test_test_align_simd_global_variable_length ....................................... Passed 0.09 sec +5: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +5: ************************************** +5: Total Tests: 24 +5: Skipped: 0 +5: Errors: 0 +5: ************************************** + 10/407 Test #5: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.09 sec +11: test_align_parallel_wavefront_alignment_scheduler_construct OK +12: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK + 11/407 Test #17: test_test_align_split ............................................................. Passed 0.05 sec + 12/407 Test #19: test_test_arg_parse ............................................................... Passed 0.04 sec +20: TEST SUITE test_arg_parse 20: SEQAN_ENABLE_DEBUG == 1 20: SEQAN_ENABLE_TESTING == 1 20: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 20: SEQAN_ASYNC_IO == 1 -20: test_align_parallel_wavefront_single_global_alignment OK -21: TEST SUITE test_align_parallel_algorithm +20: test_path_availability OK +20: test_delete_version_files OK +20: test_create_files OK +20: test_option_on OK +20: test_delete_version_files OK +20: test_option_off OK +20: test_delete_version_files OK +20: test_smaller_seqan_version OK +20: test_delete_version_files OK +20: test_delete_version_files OK +test 21 + Start 21: test_test_bam_io + +21: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bam_io +21: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io +21: Test timeout computed to be: 10000000 +test 22 + Start 22: test_test_basic_exception + +22: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_exception +22: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +22: Test timeout computed to be: 10000000 +test 23 + Start 23: test_test_basic_metaprogramming + +23: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_metaprogramming +23: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +23: Test timeout computed to be: 10000000 +test 24 + Start 24: test_test_basic_fundamental + +24: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_fundamental +24: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +24: Test timeout computed to be: 10000000 +test 25 + Start 25: test_test_basic_concept + +25: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_concept +25: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +25: Test timeout computed to be: 10000000 +test 26 + Start 26: test_test_basic_alphabet + +26: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_alphabet +26: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +26: Test timeout computed to be: 10000000 +test 27 + Start 27: test_test_basic_aggregate + +27: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_aggregate +27: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +27: Test timeout computed to be: 10000000 +11: test_align_parallel_wavefront_alignment_scheduler_async OK +11: test_align_parallel_wavefront_alignment_scheduler_async_with_exception OK +11: test_align_parallel_intermediate_dp_result_construct OK +11: test_align_parallel_intermediate_dp_result_update_max OK +11: test_align_parallel_intermediate_dp_result_clear OK +11: test_align_parallel_wavefront_alignment_thread_local_storage_construt OK +11: test_align_parallel_wavefront_alignment_thread_local_storage_cache OK +11: test_align_parallel_wavefront_alignment_thread_local_storage_intermediate OK +11: ************************************** +11: Total Tests: 11 +11: Skipped: 0 +11: Errors: 0 +11: ************************************** +20: test_smaller_app_version OK +20: test_delete_version_files OK +20: test_greater_app_version OK +20: test_delete_version_files OK +20: test_time_out OK +20: ************************************** +20: Total Tests: 15 +20: Skipped: 0 +20: Errors: 0 +20: ************************************** +test 28 + Start 28: test_test_basic_allocator + +28: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_allocator +28: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +28: Test timeout computed to be: 10000000 +test 29 + Start 29: test_test_basic_parallelism + +29: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_parallelism +29: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +29: Test timeout computed to be: 10000000 +test 30 + Start 30: test_test_basic_math + +30: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_math +30: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +30: Test timeout computed to be: 10000000 +test 31 + Start 31: test_test_basic_smart_pointer + +31: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_smart_pointer +31: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +31: Test timeout computed to be: 10000000 +test 32 + Start 32: test_test_basic_container + +32: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_container +32: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +32: Test timeout computed to be: 10000000 +21: TEST SUITE test_bam_io 21: SEQAN_ENABLE_DEBUG == 1 21: SEQAN_ENABLE_TESTING == 1 21: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 21: SEQAN_ASYNC_IO == 1 -21: test_align_parallel_wavefront_single_global_alignment OK -22: TEST SUITE test_align_profile +21: test_bam_io_bam_alignment_record_class OK +21: test_bam_io_bam_alignment_record_has_flag_multiple OK +21: test_bam_io_bam_alignment_record_has_flag_unmapped OK +21: test_bam_io_bam_alignment_record_has_flag_next_unmapped OK +21: test_bam_io_bam_alignment_record_has_flag_rc OK +21: test_bam_io_bam_alignment_record_has_flag_next_rc OK +21: test_bam_io_bam_alignment_record_has_flag_first OK +21: test_bam_io_bam_alignment_record_has_flag_last OK +21: test_bam_io_bam_alignment_record_has_flag_secondary OK +21: test_bam_io_bam_alignment_record_has_flag_qc_no_pass OK +21: test_bam_io_bam_alignment_record_has_flag_duplicate OK +21: test_bam_io_bam_alignment_record_has_flag_supplementary OK +21: test_bam_io_bam_header_class OK +21: test_bam_io_bam_header_typedefs OK +21: test_bam_io_bam_header_record_class OK +21: test_bam_io_bam_header_record_typedefs OK +21: test_bam_io_bam_header_record_find_tag_key OK +21: test_bam_io_bam_header_record_get_tag_value OK +21: test_bam_io_bam_io_context_standalone OK +21: test_bam_io_bam_io_context_fragment_store OK +21: test_assign_tags_bam_to_sam_two_tags OK +21: test_assign_tags_bam_to_sam_type_A OK +21: test_assign_tags_bam_to_sam_type_c OK +21: test_assign_tags_bam_to_sam_type_C OK +21: test_assign_tags_bam_to_sam_type_s OK +21: test_assign_tags_bam_to_sam_type_S OK +21: test_assign_tags_bam_to_sam_type_i OK +21: test_assign_tags_bam_to_sam_type_I OK +21: test_assign_tags_bam_to_sam_type_f OK +21: test_assign_tags_bam_to_sam_type_Z OK +21: test_assign_tags_bam_to_sam_type_H OK +21: test_assign_tags_bam_to_sam_type_Bc OK +21: test_assign_tags_bam_to_sam_type_BC OK +21: test_assign_tags_bam_to_sam_type_Bs OK +21: test_assign_tags_bam_to_sam_type_BS OK +21: test_assign_tags_bam_to_sam_type_Bi OK +21: test_assign_tags_bam_to_sam_type_BI OK +21: test_assign_tags_bam_to_sam_type_Bf OK +21: test_assign_tags_sam_to_bam_two_tags OK +21: test_assign_tags_sam_to_bam_type_A OK +21: test_assign_tags_sam_to_bam_type_i OK +21: test_assign_tags_sam_to_bam_type_f OK +21: test_assign_tags_sam_to_bam_type_Z OK +21: test_assign_tags_sam_to_bam_type_H OK +21: test_assign_tags_sam_to_bam_type_Bc OK +21: test_assign_tags_sam_to_bam_type_BC OK +21: test_assign_tags_sam_to_bam_type_Bs OK +21: test_assign_tags_sam_to_bam_type_BS OK +21: test_assign_tags_sam_to_bam_type_Bi OK +21: test_assign_tags_sam_to_bam_type_BI OK +21: test_assign_tags_sam_to_bam_type_Bf OK +21: test_bam_tags_dict_get_type_size OK +21: test_bam_tags_dict_get_type OK +21: test_bam_tags_dict_length OK +21: test_bam_tags_dict_extract_value_type_A OK +21: test_bam_tags_dict_extract_value_type_c OK +21: test_bam_tags_dict_extract_value_type_C OK +21: test_bam_tags_dict_extract_value_type_s OK +21: test_bam_tags_dict_extract_value_type_S OK +21: test_bam_tags_dict_extract_value_type_i OK +21: test_bam_tags_dict_extract_value_type_I OK +21: test_bam_tags_dict_get_value_type_A OK +21: test_bam_tags_dict_get_value_type_c OK +21: test_bam_tags_dict_get_value_type_C OK +21: test_bam_tags_dict_get_value_type_s OK +21: test_bam_tags_dict_get_value_type_S OK +21: test_bam_tags_dict_get_value_type_i OK +21: test_bam_tags_dict_get_value_type_I OK +21: test_bam_tags_dict_get_value_type_f OK +21: test_bam_tags_dict_get_value_type_Z OK +21: test_bam_tags_dict_get_value_type_H OK +21: test_bam_tags_dict_get_value_type_Bc OK +21: test_bam_tags_dict_get_value_type_BC OK +21: test_bam_tags_dict_get_value_type_Bs OK +21: test_bam_tags_dict_get_value_type_BS OK +21: test_bam_tags_dict_get_value_type_Bi OK +21: test_bam_tags_dict_get_value_type_BI OK +21: test_bam_tags_dict_get_value_type_Bf OK +21: test_bam_tags_dict_erase_tag OK +21: test_bam_tags_dict_set_tag_value OK +21: test_bam_tags_dict_append_tag_value OK +21: test_bam_tags_dict_const_bam_tags_sequence OK +21: test_bam_io_sam_read_header OK +21: test_bam_io_sam_read_alignment OK +21: test_bam_io_sam_write_header OK +21: test_bam_io_sam_write_alignment OK +21: test_bam_io_bam_read_header OK +21: test_bam_io_bam_read_alignment OK +21: test_bam_io_bam_write_header OK +21: test_bam_io_bam_write_alignment OK +21: test_bam_io_bam_file_isOpen_fileIn OK +21: test_bam_io_bam_file_isOpen_fileOut OK +21: test_bam_io_bam_file_sam_file_size OK +21: test_bam_io_bam_file_sam_read_header OK +21: test_bam_io_bam_file_sam_read_records OK +21: test_bam_io_bam_file_sam_write_header OK +21: test_bam_io_bam_file_sam_write_records OK +21: test_bam_io_bam_file_bam_file_size OK +21: test_bam_io_bam_file_bam_read_header OK +22: TEST SUITE test_basic_exception 22: SEQAN_ENABLE_DEBUG == 1 22: SEQAN_ENABLE_TESTING == 1 22: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 22: SEQAN_ASYNC_IO == 1 -22: test_align_profile_profile_test OK -22: test_align_profile_align_profile_sequence OK -22: test_align_profile_align_profile_sequence_frac OK -22: test_align_profile_add_to_profile OK -22: test_align_profile_add_to_profile_multiple OK -22: test_align_profile_add_to_profile_banded OK -22: test_align_profile_add_to_profile_multiple_banded OK +22: test_basic_exception_try_catch OK +22: test_basic_exception_bad_alloc OK +22: test_basic_exception_runtime_error OK 22: ************************************** -22: Total Tests: 7 +22: Total Tests: 3 22: Skipped: 0 22: Errors: 0 22: ************************************** -23: TEST SUITE test_align_split +23: TEST SUITE test_basic_metaprogramming 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: test_basic_metaprogramming_logic_bool_type OK +23: test_basic_metaprogramming_logic_eval OK +23: test_basic_metaprogramming_logic_or OK +23: test_basic_metaprogramming_logic_or_c OK +23: test_basic_metaprogramming_logic_and OK +23: test_basic_metaprogramming_logic_and_c OK +23: test_basic_metaprogramming_logic_if OK +23: test_basic_metaprogramming_logic_if_c OK +23: test_basic_metaprogramming_control_loop_reverse OK +23: test_basic_metaprogramming_control_loop OK +23: test_basic_metaprogramming_control_switch OK +23: test_basic_metaprogramming_control_if OK +23: test_basic_metaprogramming_math_log2 OK +23: test_basic_metaprogramming_math_log2_floor OK +23: test_basic_metaprogramming_math_log2_power OK +23: test_basic_metaprogramming_type_same_type OK +23: test_basic_metaprogramming_type_make_signed OK +23: test_basic_metaprogramming_type_make_unsigned OK +23: test_basic_metaprogramming_type_remove_reference OK +23: test_basic_metaprogramming_type_remove_const OK +23: test_basic_metaprogramming_type_is_const OK +23: test_basic_metaprogramming_type_class_identifier OK +23: test_basic_metaprogramming_enable_if_disable_if OK +23: test_basic_metaprogramming_enable_if2_disable_if2 OK 23: ************************************** -23: Total Tests: 13 +23: Total Tests: 24 23: Skipped: 0 23: Errors: 0 23: ************************************** -24: TEST SUITE test_alignment_free +24: TEST SUITE test_basic_metaprogramming 24: SEQAN_ENABLE_DEBUG == 1 24: SEQAN_ENABLE_TESTING == 1 24: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 24: SEQAN_ASYNC_IO == 1 -24: test_alignment_free_d2_dna OK -24: test_alignment_free_d2_dna5 OK -24: test_alignment_free_d2star_dna5 OK -24: test_alignment_free_d2z_dna5 OK -25: TEST SUITE test_arg_parse +24: test_basic_fundamental_tags_tag OK +24: test_basic_fundamental_tags_tags OK +24: test_basic_fundamental_tags_tag_list OK +24: test_basic_fundamental_tags_tag_selector OK +24: test_basic_fundamental_tags_length_tag_list OK +24: test_basic_fundamental_metafunctions_value OK +24: test_basic_fundamental_metafunctions_get_value OK +24: test_basic_fundamental_metafunctions_reference OK +24: test_basic_fundamental_metafunctions_size OK +24: test_basic_fundamental_metafunctions_difference OK +24: test_basic_fundamental_metafunctions_position OK +24: test_basic_fundamental_metafunctions_spec OK +24: test_basic_fundamental_metafunctions_deepest_spec OK +24: test_basic_fundamental_transport_assign OK +24: test_basic_fundamental_transport_move OK +24: test_basic_fundamental_transport_set OK +24: test_basic_fundamental_comparison_compare_type OK +24: test_basic_fundamental_convert_metafunction OK +24: test_basic_fundamental_convert_function OK +24: test_basic_array_construct_destruct_metafunction_is_simple OK +24: test_basic_array_construct_destruct_construct_value_pointer OK +24: test_basic_array_construct_destruct_destruct_value_pointer OK +24: test_basic_array_construct_destruct_array_construct_pointer OK +24: test_basic_array_construct_destruct_array_construct_copy_pointer OK +24: test_basic_array_construct_destruct_array_construct_move_pointer OK +24: test_basic_array_construct_destruct_array_destruct_pointer OK +24: test_basic_array_construct_destruct_array_fill_pointer OK +24: test_basic_array_construct_destruct_array_copy_forward_pointer OK +24: test_basic_array_construct_destruct_array_copy_backward_pointer OK +24: test_basic_array_construct_destruct_array_copy_pointer OK +24: test_basic_array_construct_destruct_array_move_forward_pointer OK +24: test_basic_array_construct_destruct_array_move_backward_pointer OK +24: test_basic_array_construct_destruct_array_move_pointer OK +24: test_basic_array_construct_destruct_array_clear_space_pointer OK +24: ************************************** +24: Total Tests: 34 +24: Skipped: 0 +24: Errors: 0 +24: ************************************** +25: TEST SUITE test_basic_concept 25: SEQAN_ENABLE_DEBUG == 1 25: SEQAN_ENABLE_TESTING == 1 25: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 25: SEQAN_ASYNC_IO == 1 -25: test_unset_value OK -25: test_unset_values OK -25: test_int_short_argument OK -25: test_int_long_argument OK -25: test_non_int_argument OK -25: test_int64_short_argument OK -25: test_int64_long_argument OK -25: test_non_int64_argument OK -25: test_double_short_argument OK -25: test_double_long_argument OK -25: test_non_double_argument OK -25: test_double_scientific_notation OK -25: test_string_short_argument OK -25: test_string_long_argument OK -25: test_string_missing_argument OK -25: test_string_list OK -25: test_min_max_double_values_in_range OK -25: test_min_max_double_values_to_small OK -25: test_min_max_double_values_to_big OK -25: test_min_max_int_values_in_range OK -25: test_min_max_int_values_to_small OK -25: test_min_max_int_values_to_big OK -25: test_allowed_values_contained OK -25: test_allowed_values_not_contained OK -25: test_input_file_short OK -25: test_input_file_long OK -25: test_input_file_missing OK -25: test_input_file_invalid_type OK -25: test_input_file_valid_type OK -25: test_input_file_extension OK -25: test_input_file_auto_file_ext_option OK -25: test_output_file_short OK -25: test_output_file_long OK -25: test_output_file_missing OK -25: test_output_file_invalid_type OK -25: test_output_file_valid_type OK -25: test_output_file_extension OK -25: test_output_file_extension_targz OK -25: test_output_file_explicit_extension_valid OK -25: test_output_file_explicit_extension_invalid OK -25: test_argument_string OK -25: test_argument_not_all_set OK -25: test_argument_double OK -25: test_argument_not_a_double OK -25: test_argument_auto_file_ext_option OK -25: test_int_list_option OK -25: test_double_list_option OK -25: test_double_list_option_not_enough_arguments OK -25: test_boolean_argument_on OK -25: test_boolean_argument_off OK -25: test_boolean_flags OK -25: test_combined_boolean_flags OK -25: test_long_short_flag_name OK -25: test_argument_string_type OK -25: test_argument_int_type OK -25: test_argument_int64_type OK -25: test_argument_double_type OK -25: test_argument_inputfile_type OK -25: test_argument_outputfile_type OK -25: test_argument_inputprefix_type OK -25: test_argument_outputprefix_type OK -25: test_argument_label OK -25: test_argument_invalid_cast OK -25: test_argument_min_max_boundaries OK -25: test_argument_valid_values OK -25: test_argument_valid_values_directories OK -25: test_argument_parser OK -25: test_parse_non_const_cstring OK -25: test_default_value OK -25: test_isDouble OK -25: test_isInt OK -25: test_arg_parse_ctd_support OK +25: test_basic_concepts_concept_impl OK +25: test_basic_concepts_concept_refine OK +25: test_basic_concepts_move_construtible_concept OK 25: ************************************** -25: Total Tests: 72 +25: Total Tests: 3 25: Skipped: 0 25: Errors: 0 25: ************************************** -26: TEST SUITE test_arg_parse +26: TEST SUITE test_basic_alphabet 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: test_basic_alphabet_adapt_builtins_metafunction_is_char_type OK +26: test_basic_alphabet_adapt_builtins_concepts_bool OK +26: test_basic_alphabet_adapt_builtins_concepts_char OK +26: test_basic_alphabet_adapt_builtins_concepts_short OK +26: test_basic_alphabet_adapt_builtins_concepts_int OK +26: test_basic_alphabet_adapt_builtins_concepts_long OK +26: test_basic_alphabet_adapt_builtins_concepts_int8 OK +26: test_basic_alphabet_adapt_builtins_concepts_uint8 OK +26: test_basic_alphabet_adapt_builtins_concepts_int16 OK +26: test_basic_alphabet_adapt_builtins_concepts_uint16 OK +26: test_basic_alphabet_adapt_builtins_concepts_int32 OK +26: test_basic_alphabet_adapt_builtins_concepts_uint32 OK +26: test_basic_alphabet_adapt_builtins_concepts_int64 OK +26: test_basic_alphabet_adapt_builtins_concepts_uint64 OK +26: test_basic_alphabet_adapt_builtins_concepts_float OK +26: test_basic_alphabet_adapt_builtins_concepts_double OK +26: test_basic_alphabet_qualities_quality_value_size_metafunction OK +26: test_basic_alphabet_qualities_quality_has_qualities_metafunction OK +26: test_basic_alphabet_qualities_convert_quality OK +26: test_basic_alphabet_bio_gap_value_function OK +26: test_basic_alphabet_bio_unknown_value_function OK +26: test_basic_alphabet_storage_bits_per_value_metafunction OK +26: test_basic_alphabet_storage_value_size_metafunction OK +26: test_basic_alphabet_storage_value_size_function OK +26: test_basic_alphabet_storage_integral_for_value_metafunction OK +26: test_basic_alphabet_storage_bytes_per_value_metafunction OK +26: test_basic_alphabet_residue_metafunctions_dna OK +26: test_basic_alphabet_residue_metafunctions_dna5 OK +26: test_basic_alphabet_residue_metafunctions_dna_q OK +26: test_basic_alphabet_residue_metafunctions_dna5_q OK +26: test_basic_alphabet_residue_metafunctions_rna OK +26: test_basic_alphabet_residue_metafunctions_rna5 OK +26: test_basic_alphabet_residue_metafunctions_iupac OK +26: test_basic_alphabet_residue_metafunctions_amino_acid OK +26: test_basic_alphabet_residue_usage_dna OK +26: test_basic_alphabet_residue_usage_dna5 OK +26: test_basic_alphabet_residue_usage_dna_q OK +26: test_basic_alphabet_residue_usage_dna5_q OK +26: test_basic_alphabet_residue_usage_rna OK +26: test_basic_alphabet_residue_usage_rna5 OK +26: test_basic_alphabet_residue_usage_iupac OK +26: test_basic_alphabet_residue_usage_amino_acid OK +26: test_basic_alphabet_profile_metafunctions OK +26: test_basic_alphabet_profile_constructors OK +26: test_basic_alphabet_profile_relations OK +26: test_basic_alphabet_profile_empty OK 26: ************************************** -26: Total Tests: 15 +26: Total Tests: 46 26: Skipped: 0 26: Errors: 0 26: ************************************** -27: TEST SUITE test_bam_io + 13/407 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.15 sec + 14/407 Test #11: test_align_parallel_data_structures ............................................... Passed 0.13 sec + 15/407 Test #20: test_test_arg_parse_version_check ................................................. Passed 0.09 sec + 16/407 Test #22: test_test_basic_exception ......................................................... Passed 0.05 sec + 17/407 Test #23: test_test_basic_metaprogramming ................................................... Passed 0.05 sec + 18/407 Test #24: test_test_basic_fundamental ....................................................... Passed 0.05 sec + 19/407 Test #25: test_test_basic_concept ........................................................... Passed 0.04 sec + 20/407 Test #26: test_test_basic_alphabet .......................................................... Passed 0.04 sec +test 33 + Start 33: test_test_basic_proxy + +33: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_proxy +33: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +33: Test timeout computed to be: 10000000 +test 34 + Start 34: test_test_basic_iterator + +34: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_iterator +34: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic +34: Test timeout computed to be: 10000000 +test 35 + Start 35: test_test_bed_io + +35: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bed_io +35: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io +35: Test timeout computed to be: 10000000 +test 36 + Start 36: test_blast + +36: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_blast +36: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast +36: Test timeout computed to be: 10000000 +test 37 + Start 37: test_test_consensus + +37: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_consensus +37: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus +37: Test timeout computed to be: 10000000 +test 38 + Start 38: test_test_consensus_v2 + +38: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_consensus_v2 +38: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 +38: Test timeout computed to be: 10000000 +test 39 + Start 39: test_test_find + +39: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find +39: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find +39: Test timeout computed to be: 10000000 +test 40 + Start 40: test_test_gff_io + +40: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_gff_io +40: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io +40: Test timeout computed to be: 10000000 +21: test_bam_io_bam_file_bam_read_records OK +21: test_bam_io_bam_file_bam_read_ex1 OK +21: test_bam_io_bam_file_bam_write_header OK +27: TEST SUITE test_basic_aggregate 27: SEQAN_ENABLE_DEBUG == 1 27: SEQAN_ENABLE_TESTING == 1 27: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 27: SEQAN_ASYNC_IO == 1 -27: test_bam_io_bam_alignment_record_class OK -27: test_bam_io_bam_alignment_record_has_flag_multiple OK -27: test_bam_io_bam_alignment_record_has_flag_unmapped OK -27: test_bam_io_bam_alignment_record_has_flag_next_unmapped OK -27: test_bam_io_bam_alignment_record_has_flag_rc OK -27: test_bam_io_bam_alignment_record_has_flag_next_rc OK -27: test_bam_io_bam_alignment_record_has_flag_first OK -27: test_bam_io_bam_alignment_record_has_flag_last OK -27: test_bam_io_bam_alignment_record_has_flag_secondary OK -27: test_bam_io_bam_alignment_record_has_flag_qc_no_pass OK -27: test_bam_io_bam_alignment_record_has_flag_duplicate OK -27: test_bam_io_bam_alignment_record_has_flag_supplementary OK -27: test_bam_io_bam_header_class OK -27: test_bam_io_bam_header_typedefs OK -27: test_bam_io_bam_header_record_class OK -27: test_bam_io_bam_header_record_typedefs OK -27: test_bam_io_bam_header_record_find_tag_key OK -27: test_bam_io_bam_header_record_get_tag_value OK -27: test_bam_io_bam_io_context_standalone OK -27: test_bam_io_bam_io_context_fragment_store OK -27: test_assign_tags_bam_to_sam_two_tags OK -27: test_assign_tags_bam_to_sam_type_A OK -27: test_assign_tags_bam_to_sam_type_c OK -27: test_assign_tags_bam_to_sam_type_C OK -27: test_assign_tags_bam_to_sam_type_s OK -27: test_assign_tags_bam_to_sam_type_S OK -27: test_assign_tags_bam_to_sam_type_i OK -27: test_assign_tags_bam_to_sam_type_I OK -27: test_assign_tags_bam_to_sam_type_f OK -27: test_assign_tags_bam_to_sam_type_Z OK -27: test_assign_tags_bam_to_sam_type_H OK -27: test_assign_tags_bam_to_sam_type_Bc OK -27: test_assign_tags_bam_to_sam_type_BC OK -27: test_assign_tags_bam_to_sam_type_Bs OK -27: test_assign_tags_bam_to_sam_type_BS OK -27: test_assign_tags_bam_to_sam_type_Bi OK -27: test_assign_tags_bam_to_sam_type_BI OK -27: test_assign_tags_bam_to_sam_type_Bf OK -27: test_assign_tags_sam_to_bam_two_tags OK -27: test_assign_tags_sam_to_bam_type_A OK -27: test_assign_tags_sam_to_bam_type_i OK -27: test_assign_tags_sam_to_bam_type_f OK -27: test_assign_tags_sam_to_bam_type_Z OK -27: test_assign_tags_sam_to_bam_type_H OK -27: test_assign_tags_sam_to_bam_type_Bc OK -27: test_assign_tags_sam_to_bam_type_BC OK -27: test_assign_tags_sam_to_bam_type_Bs OK -27: test_assign_tags_sam_to_bam_type_BS OK -27: test_assign_tags_sam_to_bam_type_Bi OK -27: test_assign_tags_sam_to_bam_type_BI OK -27: test_assign_tags_sam_to_bam_type_Bf OK -27: test_bam_tags_dict_get_type_size OK -27: test_bam_tags_dict_get_type OK -27: test_bam_tags_dict_length OK -27: test_bam_tags_dict_extract_value_type_A OK -27: test_bam_tags_dict_extract_value_type_c OK -27: test_bam_tags_dict_extract_value_type_C OK -27: test_bam_tags_dict_extract_value_type_s OK -27: test_bam_tags_dict_extract_value_type_S OK -27: test_bam_tags_dict_extract_value_type_i OK -27: test_bam_tags_dict_extract_value_type_I OK -27: test_bam_tags_dict_get_value_type_A OK -27: test_bam_tags_dict_get_value_type_c OK -27: test_bam_tags_dict_get_value_type_C OK -27: test_bam_tags_dict_get_value_type_s OK -27: test_bam_tags_dict_get_value_type_S OK -27: test_bam_tags_dict_get_value_type_i OK -27: test_bam_tags_dict_get_value_type_I OK -27: test_bam_tags_dict_get_value_type_f OK -27: test_bam_tags_dict_get_value_type_Z OK -27: test_bam_tags_dict_get_value_type_H OK -27: test_bam_tags_dict_get_value_type_Bc OK -27: test_bam_tags_dict_get_value_type_BC OK -27: test_bam_tags_dict_get_value_type_Bs OK -27: test_bam_tags_dict_get_value_type_BS OK -27: test_bam_tags_dict_get_value_type_Bi OK -27: test_bam_tags_dict_get_value_type_BI OK -27: test_bam_tags_dict_get_value_type_Bf OK -27: test_bam_tags_dict_erase_tag OK -27: test_bam_tags_dict_set_tag_value OK -27: test_bam_tags_dict_append_tag_value OK -27: test_bam_tags_dict_const_bam_tags_sequence OK -27: test_bam_io_sam_read_header OK -27: test_bam_io_sam_read_alignment OK -27: test_bam_io_sam_write_header OK -27: test_bam_io_sam_write_alignment OK -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 -28: TEST SUITE test_basic_exception +27: test_basic_aggregates_pair_base_metafunctions OK +27: test_basic_aggregates_pair_base_constructors OK +27: test_basic_aggregates_pair_base_assign OK +27: test_basic_aggregates_pair_base_set OK +27: test_basic_aggregates_pair_base_move OK +27: test_basic_aggregates_pair_base_get_value OK +27: test_basic_aggregates_pair_base_assign_value OK +27: test_basic_aggregates_pair_base_set_value OK +27: test_basic_aggregates_pair_base_move_value OK +27: test_basic_aggregates_pair_base_comparison_same_spec OK +27: test_basic_aggregates_pair_base_comparison_different_spec OK +27: test_basic_aggregates_pair_base_stream_output OK +27: test_basic_aggregates_pair_packed_metafunctions OK +27: test_basic_aggregates_pair_packed_constructors OK +27: test_basic_aggregates_pair_packed_assign OK +27: test_basic_aggregates_pair_packed_set OK +27: test_basic_aggregates_pair_packed_move OK +27: test_basic_aggregates_pair_packed_get_value OK +27: test_basic_aggregates_pair_packed_assign_value OK +27: test_basic_aggregates_pair_packed_set_value OK +27: test_basic_aggregates_pair_packed_move_value OK +27: test_basic_aggregates_pair_packed_comparison_same_spec OK +27: test_basic_aggregates_pair_packed_comparison_different_spec OK +27: test_basic_aggregates_pair_packed_stream_output OK +27: test_basic_aggregates_pair_bit_packed_metafunctions OK +27: test_basic_aggregates_pair_bit_packed_constructors OK +27: test_basic_aggregates_pair_bit_packed_assign OK +27: test_basic_aggregates_pair_bit_packed_set OK +27: test_basic_aggregates_pair_bit_packed_move OK +27: test_basic_aggregates_pair_bit_packed_get_value OK +27: test_basic_aggregates_pair_bit_packed_assign_value OK +27: test_basic_aggregates_pair_bit_packed_set_value OK +27: test_basic_aggregates_pair_bit_packed_move_value OK +27: test_basic_aggregates_pair_bit_packed_comparison_same_spec OK +27: test_basic_aggregates_pair_bit_packed_comparison_different_spec OK +27: test_basic_aggregates_pair_bit_packed_stream_output OK +27: test_basic_aggregates_triple_base_metafunctions OK +27: test_basic_aggregates_triple_base_constructors OK +27: test_basic_aggregates_triple_base_assign OK +27: test_basic_aggregates_triple_base_set OK +27: test_basic_aggregates_triple_base_move OK +27: test_basic_aggregates_triple_base_get_value OK +27: test_basic_aggregates_triple_base_assign_value OK +27: test_basic_aggregates_triple_base_set_value OK +27: test_basic_aggregates_triple_base_move_value OK +27: test_basic_aggregates_triple_base_comparison_same_spec OK +27: test_basic_aggregates_triple_base_comparison_different_spec OK +27: test_basic_aggregates_triple_base_stream_output OK +27: test_basic_aggregates_triple_packed_metafunctions OK +27: test_basic_aggregates_triple_packed_constructors OK +27: test_basic_aggregates_triple_packed_assign OK +27: test_basic_aggregates_triple_packed_set OK +27: test_basic_aggregates_triple_packed_move OK +27: test_basic_aggregates_triple_packed_get_value OK +27: test_basic_aggregates_triple_packed_assign_value OK +27: test_basic_aggregates_triple_packed_set_value OK +27: test_basic_aggregates_triple_packed_move_value OK +27: test_basic_aggregates_triple_packed_comparison_same_spec OK +27: test_basic_aggregates_triple_packed_comparison_different_spec OK +27: test_basic_aggregates_triple_packed_stream_output OK +27: test_basic_aggregates_tuple_base_metafunctions OK +27: test_basic_aggregates_tuple_base_constructors OK +27: test_basic_aggregates_tuple_base_assign OK +27: test_basic_aggregates_tuple_base_set OK +27: test_basic_aggregates_tuple_base_move OK +27: test_basic_aggregates_tuple_base_get_value OK +27: test_basic_aggregates_tuple_base_assign_value OK +27: test_basic_aggregates_tuple_base_set_value OK +27: test_basic_aggregates_tuple_base_move_value OK +27: test_basic_aggregates_tuple_base_shift_left OK +27: test_basic_aggregates_tuple_base_shift_right OK +27: test_basic_aggregates_tuple_base_clear OK +27: test_basic_aggregates_tuple_base_length OK +27: test_basic_aggregates_tuple_base_comparison_same_spec OK +27: test_basic_aggregates_tuple_base_stream_output OK +27: test_basic_aggregates_tuple_bit_packed_metafunctions OK +27: test_basic_aggregates_tuple_bit_packed_constructors OK +27: test_basic_aggregates_tuple_bit_packed_assign OK +27: test_basic_aggregates_tuple_bit_packed_set OK +27: test_basic_aggregates_tuple_bit_packed_move OK +27: test_basic_aggregates_tuple_bit_packed_get_value OK +27: test_basic_aggregates_tuple_bit_packed_assign_value OK +27: test_basic_aggregates_tuple_bit_packed_set_value OK +27: test_basic_aggregates_tuple_bit_packed_move_value OK +27: test_basic_aggregates_tuple_bit_packed_shift_left OK +27: test_basic_aggregates_tuple_bit_packed_shift_right OK +27: test_basic_aggregates_tuple_bit_packed_clear OK +27: test_basic_aggregates_tuple_bit_packed_length OK +27: test_basic_aggregates_tuple_bit_packed_comparison_same_spec OK +27: test_basic_aggregates_tuple_bit_packed_stream_output OK +27: ************************************** +27: Total Tests: 90 +27: Skipped: 0 +27: Errors: 0 +27: ************************************** + 21/407 Test #27: test_test_basic_aggregate ......................................................... Passed 0.07 sec +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +28: TEST SUITE test_basic_allocator 28: SEQAN_ENABLE_DEBUG == 1 28: SEQAN_ENABLE_TESTING == 1 28: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 28: SEQAN_ASYNC_IO == 1 -28: test_basic_exception_try_catch OK -28: test_basic_exception_bad_alloc OK -28: test_basic_exception_runtime_error OK +28: test_basic_allocator_simple OK +28: test_basic_allocator_pool OK +28: test_basic_allocator_multi_pool OK +28: test_basic_allocator_chunk_pool OK 28: ************************************** -28: Total Tests: 3 +28: Total Tests: 4 28: Skipped: 0 28: Errors: 0 28: ************************************** -29: TEST SUITE test_basic_metaprogramming + 22/407 Test #28: test_test_basic_allocator ......................................................... Passed 0.06 sec +29: TEST SUITE test_basic_parallelism 29: SEQAN_ENABLE_DEBUG == 1 29: SEQAN_ENABLE_TESTING == 1 29: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 29: SEQAN_ASYNC_IO == 1 -29: test_basic_metaprogramming_logic_bool_type OK -29: test_basic_metaprogramming_logic_eval OK -29: test_basic_metaprogramming_logic_or OK -29: test_basic_metaprogramming_logic_or_c OK -29: test_basic_metaprogramming_logic_and OK -29: test_basic_metaprogramming_logic_and_c OK -29: test_basic_metaprogramming_logic_if OK -29: test_basic_metaprogramming_logic_if_c OK -29: test_basic_metaprogramming_control_loop_reverse OK -29: test_basic_metaprogramming_control_loop OK -29: test_basic_metaprogramming_control_switch OK -29: test_basic_metaprogramming_control_if OK -29: test_basic_metaprogramming_math_log2 OK -29: test_basic_metaprogramming_math_log2_floor OK -29: test_basic_metaprogramming_math_log2_power OK -29: test_basic_metaprogramming_type_same_type OK -29: test_basic_metaprogramming_type_make_signed OK -29: test_basic_metaprogramming_type_make_unsigned OK -29: test_basic_metaprogramming_type_remove_reference OK -29: test_basic_metaprogramming_type_remove_const OK -29: test_basic_metaprogramming_type_is_const OK -29: test_basic_metaprogramming_type_class_identifier OK -29: test_basic_metaprogramming_enable_if_disable_if OK -29: test_basic_metaprogramming_enable_if2_disable_if2 OK +29: test_basic_parallelism_enable_parallelism_macro OK 29: ************************************** -29: Total Tests: 24 +29: Total Tests: 1 29: Skipped: 0 29: Errors: 0 29: ************************************** -30: TEST SUITE test_basic_metaprogramming + 23/407 Test #29: test_test_basic_parallelism ....................................................... Passed 0.06 sec +30: TEST SUITE test_basic_math 30: SEQAN_ENABLE_DEBUG == 1 30: SEQAN_ENABLE_TESTING == 1 30: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 30: SEQAN_ASYNC_IO == 1 -30: test_basic_fundamental_tags_tag OK -30: test_basic_fundamental_tags_tags OK -30: test_basic_fundamental_tags_tag_list OK -30: test_basic_fundamental_tags_tag_selector OK -30: test_basic_fundamental_tags_length_tag_list OK -30: test_basic_fundamental_metafunctions_value OK -30: test_basic_fundamental_metafunctions_get_value OK -30: test_basic_fundamental_metafunctions_reference OK -30: test_basic_fundamental_metafunctions_size OK -30: test_basic_fundamental_metafunctions_difference OK -30: test_basic_fundamental_metafunctions_position OK -30: test_basic_fundamental_metafunctions_spec OK -30: test_basic_fundamental_metafunctions_deepest_spec OK -30: test_basic_fundamental_transport_assign OK -30: test_basic_fundamental_transport_move OK -30: test_basic_fundamental_transport_set OK -30: test_basic_fundamental_comparison_compare_type OK -30: test_basic_fundamental_convert_metafunction OK -30: test_basic_fundamental_convert_function OK -30: test_basic_array_construct_destruct_metafunction_is_simple OK -30: test_basic_array_construct_destruct_construct_value_pointer OK -30: test_basic_array_construct_destruct_destruct_value_pointer OK -30: test_basic_array_construct_destruct_array_construct_pointer OK -30: test_basic_array_construct_destruct_array_construct_copy_pointer OK -30: test_basic_array_construct_destruct_array_construct_move_pointer OK -30: test_basic_array_construct_destruct_array_destruct_pointer OK -30: test_basic_array_construct_destruct_array_fill_pointer OK -30: test_basic_array_construct_destruct_array_copy_forward_pointer OK -30: test_basic_array_construct_destruct_array_copy_backward_pointer OK -30: test_basic_array_construct_destruct_array_copy_pointer OK -30: test_basic_array_construct_destruct_array_move_forward_pointer OK -30: test_basic_array_construct_destruct_array_move_backward_pointer OK -30: test_basic_array_construct_destruct_array_move_pointer OK -30: test_basic_array_construct_destruct_array_clear_space_pointer OK +30: test_basic_math_int_pow OK +30: test_basic_math_log2 OK +30: test_basic_math_min OK +30: test_basic_math_max OK +30: test_basic_math_abs OK 30: ************************************** -30: Total Tests: 34 +30: Total Tests: 5 30: Skipped: 0 30: Errors: 0 30: ************************************** -31: TEST SUITE test_basic_concept + 24/407 Test #30: test_test_basic_math .............................................................. Passed 0.06 sec +31: TEST SUITE test_basic_smart_pointer 31: SEQAN_ENABLE_DEBUG == 1 31: SEQAN_ENABLE_TESTING == 1 31: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 31: SEQAN_ASYNC_IO == 1 -31: test_basic_concepts_concept_impl OK -31: test_basic_concepts_concept_refine OK -31: test_basic_concepts_move_construtible_concept OK +31: test_basic_smart_pointer_holder_simple_metafunctions OK +31: test_basic_smart_pointer_holder_simple_constructors OK +31: test_basic_smart_pointer_holder_simple_transport OK +31: test_basic_smart_pointer_holder_simple_transport_value OK +31: test_basic_smart_pointer_holder_simple_dependencies OK +31: test_basic_smart_pointer_holder_simple_accessor OK +31: test_basic_smart_pointer_holder_tristate_metafunctions OK +31: test_basic_smart_pointer_holder_tristate_constructors OK +31: test_basic_smart_pointer_holder_tristate_transport OK +31: test_basic_smart_pointer_holder_tristate_transport_value OK +31: test_basic_smart_pointer_holder_tristate_dependencies OK +31: test_basic_smart_pointer_holder_tristate_accessor OK 31: ************************************** -31: Total Tests: 3 +31: Total Tests: 12 31: Skipped: 0 31: Errors: 0 31: ************************************** -32: TEST SUITE test_basic_alphabet + 25/407 Test #31: test_test_basic_smart_pointer ..................................................... Passed 0.06 sec +32: TEST SUITE test_basic_container 32: SEQAN_ENABLE_DEBUG == 1 32: SEQAN_ENABLE_TESTING == 1 32: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 32: SEQAN_ASYNC_IO == 1 -32: test_basic_alphabet_adapt_builtins_metafunction_is_char_type OK -32: test_basic_alphabet_adapt_builtins_concepts_bool OK -32: test_basic_alphabet_adapt_builtins_concepts_char OK -32: test_basic_alphabet_adapt_builtins_concepts_short OK -32: test_basic_alphabet_adapt_builtins_concepts_int OK -32: test_basic_alphabet_adapt_builtins_concepts_long OK -32: test_basic_alphabet_adapt_builtins_concepts_int8 OK -32: test_basic_alphabet_adapt_builtins_concepts_uint8 OK -32: test_basic_alphabet_adapt_builtins_concepts_int16 OK -32: test_basic_alphabet_adapt_builtins_concepts_uint16 OK -32: test_basic_alphabet_adapt_builtins_concepts_int32 OK -32: test_basic_alphabet_adapt_builtins_concepts_uint32 OK -32: test_basic_alphabet_adapt_builtins_concepts_int64 OK -32: test_basic_alphabet_adapt_builtins_concepts_uint64 OK -32: test_basic_alphabet_adapt_builtins_concepts_float OK -32: test_basic_alphabet_adapt_builtins_concepts_double OK -32: test_basic_alphabet_qualities_quality_value_size_metafunction OK -32: test_basic_alphabet_qualities_quality_has_qualities_metafunction OK -32: test_basic_alphabet_qualities_convert_quality OK -32: test_basic_alphabet_bio_gap_value_function OK -32: test_basic_alphabet_bio_unknown_value_function OK -32: test_basic_alphabet_storage_bits_per_value_metafunction OK -32: test_basic_alphabet_storage_value_size_metafunction OK -32: test_basic_alphabet_storage_value_size_function OK -32: test_basic_alphabet_storage_integral_for_value_metafunction OK -32: test_basic_alphabet_storage_bytes_per_value_metafunction OK -32: test_basic_alphabet_residue_metafunctions_dna OK -32: test_basic_alphabet_residue_metafunctions_dna5 OK -32: test_basic_alphabet_residue_metafunctions_dna_q OK -32: test_basic_alphabet_residue_metafunctions_dna5_q OK -32: test_basic_alphabet_residue_metafunctions_rna OK -32: test_basic_alphabet_residue_metafunctions_rna5 OK -32: test_basic_alphabet_residue_metafunctions_iupac OK -32: test_basic_alphabet_residue_metafunctions_amino_acid OK -32: test_basic_alphabet_residue_usage_dna OK -32: test_basic_alphabet_residue_usage_dna5 OK -32: test_basic_alphabet_residue_usage_dna_q OK -32: test_basic_alphabet_residue_usage_dna5_q OK -32: test_basic_alphabet_residue_usage_rna OK -32: test_basic_alphabet_residue_usage_rna5 OK -32: test_basic_alphabet_residue_usage_iupac OK -32: test_basic_alphabet_residue_usage_amino_acid OK -32: test_basic_alphabet_profile_metafunctions OK -32: test_basic_alphabet_profile_constructors OK -32: test_basic_alphabet_profile_relations OK -32: test_basic_alphabet_profile_empty OK 32: ************************************** -32: Total Tests: 46 +32: Total Tests: 0 32: Skipped: 0 32: Errors: 0 32: ************************************** -33: TEST SUITE test_basic_aggregate -33: SEQAN_ENABLE_DEBUG == 1 -33: SEQAN_ENABLE_TESTING == 1 -33: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -33: SEQAN_ASYNC_IO == 1 -33: test_basic_aggregates_pair_base_metafunctions OK -33: test_basic_aggregates_pair_base_constructors OK -33: test_basic_aggregates_pair_base_assign OK -33: test_basic_aggregates_pair_base_set OK -33: test_basic_aggregates_pair_base_move OK -33: test_basic_aggregates_pair_base_get_value OK -33: test_basic_aggregates_pair_base_assign_value OK -33: test_basic_aggregates_pair_base_set_value OK -33: test_basic_aggregates_pair_base_move_value OK -33: test_basic_aggregates_pair_base_comparison_same_spec OK -33: test_basic_aggregates_pair_base_comparison_different_spec OK -33: test_basic_aggregates_pair_base_stream_output OK -33: test_basic_aggregates_pair_packed_metafunctions OK -33: test_basic_aggregates_pair_packed_constructors OK -33: test_basic_aggregates_pair_packed_assign OK -33: test_basic_aggregates_pair_packed_set OK -33: test_basic_aggregates_pair_packed_move OK -33: test_basic_aggregates_pair_packed_get_value OK -33: test_basic_aggregates_pair_packed_assign_value OK -33: test_basic_aggregates_pair_packed_set_value OK -33: test_basic_aggregates_pair_packed_move_value OK -33: test_basic_aggregates_pair_packed_comparison_same_spec OK -33: test_basic_aggregates_pair_packed_comparison_different_spec OK -33: test_basic_aggregates_pair_packed_stream_output OK -33: test_basic_aggregates_pair_bit_packed_metafunctions OK -33: test_basic_aggregates_pair_bit_packed_constructors OK -33: test_basic_aggregates_pair_bit_packed_assign OK -33: test_basic_aggregates_pair_bit_packed_set OK -33: test_basic_aggregates_pair_bit_packed_move OK -33: test_basic_aggregates_pair_bit_packed_get_value OK -33: test_basic_aggregates_pair_bit_packed_assign_value OK -33: test_basic_aggregates_pair_bit_packed_set_value OK -33: test_basic_aggregates_pair_bit_packed_move_value OK -33: test_basic_aggregates_pair_bit_packed_comparison_same_spec OK -33: test_basic_aggregates_pair_bit_packed_comparison_different_spec OK -33: test_basic_aggregates_pair_bit_packed_stream_output OK -33: test_basic_aggregates_triple_base_metafunctions OK -33: test_basic_aggregates_triple_base_constructors OK -33: test_basic_aggregates_triple_base_assign OK -33: test_basic_aggregates_triple_base_set OK -33: test_basic_aggregates_triple_base_move OK -33: test_basic_aggregates_triple_base_get_value OK -33: test_basic_aggregates_triple_base_assign_value OK -33: test_basic_aggregates_triple_base_set_value OK -33: test_basic_aggregates_triple_base_move_value OK -33: test_basic_aggregates_triple_base_comparison_same_spec OK -33: test_basic_aggregates_triple_base_comparison_different_spec OK -33: test_basic_aggregates_triple_base_stream_output OK -33: test_basic_aggregates_triple_packed_metafunctions OK -33: test_basic_aggregates_triple_packed_constructors OK -33: test_basic_aggregates_triple_packed_assign OK -33: test_basic_aggregates_triple_packed_set OK -33: test_basic_aggregates_triple_packed_move OK -33: test_basic_aggregates_triple_packed_get_value OK -33: test_basic_aggregates_triple_packed_assign_value OK -33: test_basic_aggregates_triple_packed_set_value OK -33: test_basic_aggregates_triple_packed_move_value OK -33: test_basic_aggregates_triple_packed_comparison_same_spec OK -33: test_basic_aggregates_triple_packed_comparison_different_spec OK -33: test_basic_aggregates_triple_packed_stream_output OK -33: test_basic_aggregates_tuple_base_metafunctions OK -33: test_basic_aggregates_tuple_base_constructors OK -33: test_basic_aggregates_tuple_base_assign OK -33: test_basic_aggregates_tuple_base_set OK -33: test_basic_aggregates_tuple_base_move OK -33: test_basic_aggregates_tuple_base_get_value OK -33: test_basic_aggregates_tuple_base_assign_value OK -33: test_basic_aggregates_tuple_base_set_value OK -33: test_basic_aggregates_tuple_base_move_value OK -33: test_basic_aggregates_tuple_base_shift_left OK -33: test_basic_aggregates_tuple_base_shift_right OK -33: test_basic_aggregates_tuple_base_clear OK -33: test_basic_aggregates_tuple_base_length OK -33: test_basic_aggregates_tuple_base_comparison_same_spec OK -33: test_basic_aggregates_tuple_base_stream_output OK -33: test_basic_aggregates_tuple_bit_packed_metafunctions OK -33: test_basic_aggregates_tuple_bit_packed_constructors OK -33: test_basic_aggregates_tuple_bit_packed_assign OK -33: test_basic_aggregates_tuple_bit_packed_set OK -33: test_basic_aggregates_tuple_bit_packed_move OK -33: test_basic_aggregates_tuple_bit_packed_get_value OK -33: test_basic_aggregates_tuple_bit_packed_assign_value OK -33: test_basic_aggregates_tuple_bit_packed_set_value OK -33: test_basic_aggregates_tuple_bit_packed_move_value OK -33: test_basic_aggregates_tuple_bit_packed_shift_left OK -33: test_basic_aggregates_tuple_bit_packed_shift_right OK -33: test_basic_aggregates_tuple_bit_packed_clear OK -33: test_basic_aggregates_tuple_bit_packed_length OK -33: test_basic_aggregates_tuple_bit_packed_comparison_same_spec OK -33: test_basic_aggregates_tuple_bit_packed_stream_output OK -33: ************************************** -33: Total Tests: 90 -33: Skipped: 0 -33: Errors: 0 -33: ************************************** - 1/414 Test #1: test_test_align ................................................................... Passed 0.27 sec - 2/414 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.26 sec - 3/414 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.25 sec - 4/414 Test #4: test_test_align_simd_global_equal_length_avx2_host ................................ Passed 0.24 sec - 5/414 Test #5: test_test_align_simd_global_variable_length ....................................... Passed 0.24 sec - 6/414 Test #6: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.23 sec - 7/414 Test #7: test_test_align_simd_global_variable_length_avx2_host ............................. Passed 0.22 sec - 8/414 Test #8: test_test_align_simd_local_equal_length ........................................... Passed 0.22 sec - 9/414 Test #9: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.22 sec - 10/414 Test #10: test_test_align_simd_local_equal_length_avx2_host ................................. Passed 0.21 sec - 11/414 Test #11: test_test_align_simd_local_variable_length ........................................ Passed 0.21 sec - 12/414 Test #12: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.20 sec - 13/414 Test #13: test_test_align_simd_local_variable_length_avx2_host .............................. Passed 0.19 sec - 14/414 Test #14: test_test_align_extend ............................................................ Passed 0.19 sec - 15/414 Test #15: test_align_parallel_data_structures ............................................... Passed 0.18 sec - 16/414 Test #22: test_test_align_profile ........................................................... Passed 0.14 sec - 17/414 Test #23: test_test_align_split ............................................................. Passed 0.14 sec - 18/414 Test #25: test_test_arg_parse ............................................................... Passed 0.13 sec - 19/414 Test #28: test_test_basic_exception ......................................................... Passed 0.12 sec - 20/414 Test #29: test_test_basic_metaprogramming ................................................... Passed 0.11 sec - 21/414 Test #30: test_test_basic_fundamental ....................................................... Passed 0.10 sec - 22/414 Test #31: test_test_basic_concept ........................................................... Passed 0.10 sec - 23/414 Test #32: test_test_basic_alphabet .......................................................... Passed 0.09 sec - 24/414 Test #33: test_test_basic_aggregate ......................................................... Passed 0.09 sec + 26/407 Test #32: test_test_basic_container ......................................................... Passed 0.05 sec +test 41 + Start 41: test_test_graph_algorithms + +41: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_algorithms +41: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms +41: Test timeout computed to be: 10000000 +test 42 + Start 42: test_test_graph_align + +42: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_align +42: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align +42: Test timeout computed to be: 10000000 test 43 - Start 43: test_test_consensus + Start 43: test_test_graph_msa -43: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_consensus -43: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus +43: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_msa +43: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa 43: Test timeout computed to be: 10000000 test 44 - Start 44: test_test_consensus_v2 + Start 44: test_test_graph_types_property_map -44: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_consensus_v2 -44: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 +44: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_property_map +44: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types 44: Test timeout computed to be: 10000000 test 45 - Start 45: test_test_find + Start 45: test_test_graph_types_derived -45: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find -45: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find +45: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_derived +45: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types 45: Test timeout computed to be: 10000000 test 46 - Start 46: test_test_gff_io + Start 46: test_test_graph_types_iterators -46: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_gff_io -46: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io +46: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_iterators +46: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types 46: Test timeout computed to be: 10000000 -test 47 - Start 47: test_test_graph_algorithms - -47: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_algorithms -47: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms -47: Test timeout computed to be: 10000000 -test 48 - Start 48: test_test_graph_align - -48: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_align -48: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align -48: Test timeout computed to be: 10000000 -test 49 - Start 49: test_test_graph_msa - -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 -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 -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 - 25/414 Test #26: test_test_arg_parse_version_check ................................................. Passed 0.34 sec -27: test_bam_io_bam_file_bam_read_ex1 OK -27: test_bam_io_bam_file_bam_write_header OK -27: test_bam_io_bam_file_bam_write_records OK -34: TEST SUITE test_basic_allocator +33: TEST SUITE test_basic_proxy +33: SEQAN_ENABLE_DEBUG == 1 +33: SEQAN_ENABLE_TESTING == 1 +33: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +33: SEQAN_ASYNC_IO == 1 +33: test_basic_proxy_iterator_constructors OK +33: test_basic_proxy_iterator_assign OK +33: test_basic_proxy_iterator_getValue OK +33: test_basic_proxy_iterator_comparators OK +33: test_basic_proxy_iterator_stream_read OK +33: test_basic_proxy_iterator_stream_write OK +33: ************************************** +33: Total Tests: 6 +33: Skipped: 0 +33: Errors: 0 +33: ************************************** +34: TEST SUITE test_basic_iterator 34: SEQAN_ENABLE_DEBUG == 1 34: SEQAN_ENABLE_TESTING == 1 34: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 34: SEQAN_ASYNC_IO == 1 -34: test_basic_allocator_simple OK -34: test_basic_allocator_pool OK -34: test_basic_allocator_multi_pool OK -34: test_basic_allocator_chunk_pool OK +34: test_basic_iterator_adapt_pointer_metafunctions OK +34: test_basic_iterator_adapt_pointer_transport OK +34: test_basic_iterator_adapt_pointer_transport_value OK +34: test_basic_iterator_adapt_pointer_movement OK +34: test_basic_iterator_adapt_pointer_arithmetics OK +34: test_basic_iterator_adapt_std_iterator_metafunctions OK +34: test_basic_iterator_adapt_std_iterator_constructors OK +34: test_basic_iterator_adapt_std_iterator_transport OK +34: test_basic_iterator_adapt_std_iterator_transport_value OK +34: test_basic_iterator_adapt_std_iterator_movement OK +34: test_basic_iterator_adapt_std_iterator_arithmetics OK +34: test_basic_iterator_adaptor_metafunctions OK +34: test_basic_iterator_adaptor_constructors OK +34: test_basic_iterator_adaptor_transport OK +34: test_basic_iterator_adaptor_transport_value OK +34: test_basic_iterator_adaptor_movement OK +34: test_basic_iterator_adaptor_arithmetics OK +34: test_basic_iterator_adaptor_rooted_functions OK +34: test_basic_iterator_position_metafunctions OK +34: test_basic_iterator_position_constructors OK +34: test_basic_iterator_position_transport OK +34: test_basic_iterator_position_transport_value OK +34: test_basic_iterator_position_movement OK +34: test_basic_iterator_position_arithmetics OK +34: test_basic_iterator_position_rooted_functions OK +34: test_basic_iterator_zip_metafunctions OK +34: test_basic_iterator_zip_constructors OK +34: test_basic_iterator_zip_make_zip_iterator OK +34: test_basic_iterator_zip_transport OK +34: test_basic_iterator_zip_transport_value OK +34: test_basic_iterator_zip_movement OK +34: test_basic_iterator_zip_arithmetics OK 34: ************************************** -34: Total Tests: 4 +34: Total Tests: 32 34: Skipped: 0 34: Errors: 0 34: ************************************** - 26/414 Test #34: test_test_basic_allocator ......................................................... Passed 0.29 sec -35: TEST SUITE test_basic_parallelism +35: TEST SUITE test_bed_io 35: SEQAN_ENABLE_DEBUG == 1 35: SEQAN_ENABLE_TESTING == 1 35: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 35: SEQAN_ASYNC_IO == 1 -35: test_basic_parallelism_enable_parallelism_macro OK +35: test_bed_read_bed3_record OK +35: test_bed_read_bed4_record OK +35: test_bed_read_bed5_record OK +35: test_bed_read_bed6_record OK +35: test_bed_read_bed12_record OK +35: test_bed_write_bed3_record OK +35: test_bed_write_bed4_record OK +35: test_bed_write_bed5_record OK +35: test_bed_write_bed6_record OK +35: test_bed_write_bed12_record OK +35: test_bed_bed_file_read OK +35: test_bed_bed_file_write OK +35: test_bed_io_isOpen_fileIn OK +35: test_bed_io_isOpen_fileOut OK 35: ************************************** -35: Total Tests: 1 +35: Total Tests: 14 35: Skipped: 0 35: Errors: 0 35: ************************************** - 27/414 Test #35: test_test_basic_parallelism ....................................................... Passed 0.28 sec -36: TEST SUITE test_basic_math +36: TEST SUITE test_blast 36: SEQAN_ENABLE_DEBUG == 1 36: SEQAN_ENABLE_TESTING == 1 36: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 36: SEQAN_ASYNC_IO == 1 -36: test_basic_math_int_pow OK -36: test_basic_math_log2 OK -36: test_basic_math_min OK -36: test_basic_math_max OK -36: test_basic_math_abs OK +36: test_blast_program OK +36: test_blast_context_targs OK +36: test_blast_scoring_scheme_conversion OK +36: test_blast_scoring_scheme OK +36: test_blast_blastmatch_stats_and_score OK +36: test_blast_blastmatch_bit_score_e_value OK +36: test_blast_write_lowlevel OK +36: test_blast_write_tabular_without_comments OK +36: test_blast_write_tabular_without_comments_customfields OK +36: test_blast_write_tabular_without_comments_legacy OK +36: test_blast_write_tabular_without_comments_constexpr OK +36: test_blast_write_tabular_without_comments_customfields_constexpr OK +36: test_blast_write_tabular_without_comments_legacy_constexpr OK +36: test_blast_write_tabular_with_comments OK +36: test_blast_write_tabular_with_comments_customfields OK +36: test_blast_write_tabular_with_comments_legacy OK +36: test_blast_write_tabular_with_comments_constexpr OK +36: test_blast_write_tabular_with_comments_customfields_constexpr OK +36: test_blast_write_tabular_with_comments_legacy_constexpr OK +36: test_blast_write_report OK +36: test_blast_write_report_constexpr OK +36: test_blast_write_report_constexpr_dynmatrix OK +36: test_blast_read_lowlevel OK +36: test_blast_read_tabular_without_comments OK +36: test_blast_read_tabular_without_comments_customfields OK +36: test_blast_read_tabular_without_comments_legacy OK +36: test_blast_read_tabular_without_comments_constexpr OK +36: test_blast_read_tabular_without_comments_customfields_constexpr OK +36: test_blast_read_tabular_without_comments_legacy_constexpr OK +36: test_blast_read_tabular_with_comments OK +36: test_blast_read_tabular_with_comments_customfields OK +36: test_blast_read_tabular_with_comments_legacy OK +36: test_blast_read_tabular_with_comments_constexpr OK +36: test_blast_read_tabular_with_comments_customfields_constexpr OK +36: test_blast_read_tabular_with_comments_legacy_constexpr OK 36: ************************************** -36: Total Tests: 5 +36: Total Tests: 35 36: Skipped: 0 36: Errors: 0 36: ************************************** - 28/414 Test #36: test_test_basic_math .............................................................. Passed 0.28 sec -37: TEST SUITE test_basic_smart_pointer +37: TEST SUITE test_consensus 37: SEQAN_ENABLE_DEBUG == 1 37: SEQAN_ENABLE_TESTING == 1 37: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 37: SEQAN_ASYNC_IO == 1 -37: test_basic_smart_pointer_holder_simple_metafunctions OK -37: test_basic_smart_pointer_holder_simple_constructors OK -37: test_basic_smart_pointer_holder_simple_transport OK -37: test_basic_smart_pointer_holder_simple_transport_value OK -37: test_basic_smart_pointer_holder_simple_dependencies OK -37: test_basic_smart_pointer_holder_simple_accessor OK -37: test_basic_smart_pointer_holder_tristate_metafunctions OK -37: test_basic_smart_pointer_holder_tristate_constructors OK -37: test_basic_smart_pointer_holder_tristate_transport OK -37: test_basic_smart_pointer_holder_tristate_transport_value OK -37: test_basic_smart_pointer_holder_tristate_dependencies OK -37: test_basic_smart_pointer_holder_tristate_accessor OK +37: test_consensus_realign_one_contig_small OK +37: test_consensus_consensus_score_sequence_entry_consensus_score OK +37: test_consensus_consensus_score_sequence_entry_fractional_score OK +37: test_consensus_consensus_score_sequence_entry_weightedconsensus_score OK +37: test_consensus_sequence_entry_for_score_metafunction_consensus_score OK +37: test_consensus_sequence_entry_for_score_metafunction_fractional_score OK +37: test_consensus_sequence_entry_for_score_metafunction_weightedconsensus_score OK +37: test_consensus_sequence_entry_for_score_consensus_score OK +37: test_consensus_sequence_entry_for_score_fractional_score OK +37: test_consensus_sequence_entry_for_score_weightedconsensus_score OK +37: test_consensus_host_consensus_score OK +37: test_consensus_host_fractional_score OK +37: test_consensus_host_weightedconsensus_score OK +37: test_consensus_position_consensus_score OK +37: test_consensus_position_fractional_score OK +37: test_consensus_position_weightedconsensus_score OK +37: test_consensus_value_consensus_score OK +37: test_consensus_value_fractional_score OK +37: test_consensus_value_weightedconsensus_score OK 37: ************************************** -37: Total Tests: 12 +37: Total Tests: 19 37: Skipped: 0 37: Errors: 0 37: ************************************** - 29/414 Test #37: test_test_basic_smart_pointer ..................................................... Passed 0.27 sec -38: TEST SUITE test_basic_container +38: TEST SUITE test_consensus 38: SEQAN_ENABLE_DEBUG == 1 38: SEQAN_ENABLE_TESTING == 1 38: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 38: SEQAN_ASYNC_IO == 1 -38: ************************************** -38: Total Tests: 0 -38: Skipped: 0 -38: Errors: 0 -38: ************************************** - 30/414 Test #38: test_test_basic_container ......................................................... Passed 0.27 sec -39: TEST SUITE test_basic_proxy +39: TEST SUITE test_find 39: SEQAN_ENABLE_DEBUG == 1 39: SEQAN_ENABLE_TESTING == 1 39: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 39: SEQAN_ASYNC_IO == 1 -39: test_basic_proxy_iterator_constructors OK -39: test_basic_proxy_iterator_assign OK -39: test_basic_proxy_iterator_getValue OK -39: test_basic_proxy_iterator_comparators OK -39: test_basic_proxy_iterator_stream_read OK -39: test_basic_proxy_iterator_stream_write OK -39: ************************************** -39: Total Tests: 6 -39: Skipped: 0 -39: Errors: 0 -39: ************************************** - 31/414 Test #39: test_test_basic_proxy ............................................................. Passed 0.26 sec -40: TEST SUITE test_basic_iterator +39: test_myers_find_begin OK +40: TEST SUITE test_gff_io 40: SEQAN_ENABLE_DEBUG == 1 40: SEQAN_ENABLE_TESTING == 1 40: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 40: SEQAN_ASYNC_IO == 1 -40: test_basic_iterator_adapt_pointer_metafunctions OK -40: test_basic_iterator_adapt_pointer_transport OK -40: test_basic_iterator_adapt_pointer_transport_value OK -40: test_basic_iterator_adapt_pointer_movement OK -40: test_basic_iterator_adapt_pointer_arithmetics OK -40: test_basic_iterator_adapt_std_iterator_metafunctions OK -40: test_basic_iterator_adapt_std_iterator_constructors OK -40: test_basic_iterator_adapt_std_iterator_transport OK -40: test_basic_iterator_adapt_std_iterator_transport_value OK -40: test_basic_iterator_adapt_std_iterator_movement OK -40: test_basic_iterator_adapt_std_iterator_arithmetics OK -40: test_basic_iterator_adaptor_metafunctions OK -40: test_basic_iterator_adaptor_constructors OK -40: test_basic_iterator_adaptor_transport OK -40: test_basic_iterator_adaptor_transport_value OK -40: test_basic_iterator_adaptor_movement OK -40: test_basic_iterator_adaptor_arithmetics OK -40: test_basic_iterator_adaptor_rooted_functions OK -40: test_basic_iterator_position_metafunctions OK -40: test_basic_iterator_position_constructors OK -40: test_basic_iterator_position_transport OK -40: test_basic_iterator_position_transport_value OK -40: test_basic_iterator_position_movement OK -40: test_basic_iterator_position_arithmetics OK -40: test_basic_iterator_position_rooted_functions OK -40: test_basic_iterator_zip_metafunctions OK -40: test_basic_iterator_zip_constructors OK -40: test_basic_iterator_zip_make_zip_iterator OK -40: test_basic_iterator_zip_transport OK -40: test_basic_iterator_zip_transport_value OK -40: test_basic_iterator_zip_movement OK -40: test_basic_iterator_zip_arithmetics OK +40: test_store_io_read_record_context_gff OK +40: test_store_io_write_record_context_gff OK +40: test_store_io_comment_processing_context_gff OK +40: test_store_io_read_record_context_gtf OK +40: test_store_io_read_record_gtf_pseudogenes OK +40: test_store_io_write_record_context_gtf OK +40: test_store_io_gff_stream_read_record_gff OK +40: test_store_io_gff_stream_read_record_gtf OK +40: test_store_io_gff_stream_write_record_gff OK +40: test_store_io_gff_stream_write_record_gtf OK +40: test_gff_io_isOpen_fileIn OK +40: test_gff_io_isOpen_fileOut OK 40: ************************************** -40: Total Tests: 32 +40: Total Tests: 12 40: Skipped: 0 40: Errors: 0 40: ************************************** - 32/414 Test #40: test_test_basic_iterator .......................................................... Passed 0.26 sec -41: TEST SUITE test_bed_io + 27/407 Test #33: test_test_basic_proxy ............................................................. Passed 0.06 sec + 28/407 Test #34: test_test_basic_iterator .......................................................... Passed 0.05 sec + 29/407 Test #35: test_test_bed_io .................................................................. Passed 0.05 sec +test 47 + Start 47: test_test_graph_types_types + +47: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_types +47: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +47: Test timeout computed to be: 10000000 +test 48 + Start 48: test_test_graph_types_utils + +48: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_utils +48: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +48: Test timeout computed to be: 10000000 +test 49 + Start 49: test_test_index_creation + +49: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_creation +49: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +49: Test timeout computed to be: 10000000 + 30/407 Test #36: test_blast ........................................................................ Passed 0.05 sec + 31/407 Test #37: test_test_consensus ............................................................... Passed 0.05 sec + 32/407 Test #40: test_test_gff_io .................................................................. Passed 0.04 sec +21: test_bam_io_bam_file_bam_write_records OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +41: TEST SUITE test_graph_algorithms 41: SEQAN_ENABLE_DEBUG == 1 41: SEQAN_ENABLE_TESTING == 1 41: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 41: SEQAN_ASYNC_IO == 1 -41: test_bed_read_bed3_record OK -41: test_bed_read_bed4_record OK -41: test_bed_read_bed5_record OK -41: test_bed_read_bed6_record OK -41: test_bed_read_bed12_record OK -41: test_bed_write_bed3_record OK -41: test_bed_write_bed4_record OK -41: test_bed_write_bed5_record OK -41: test_bed_write_bed6_record OK -41: test_bed_write_bed12_record OK -41: test_bed_bed_file_read OK -41: test_bed_bed_file_write OK -41: test_bed_io_isOpen_fileIn OK -41: test_bed_io_isOpen_fileOut OK +41: test_heap_tree OK +41: test_breadth_first_search OK +41: test_depth_first_search OK +41: test_topological_sort OK +41: test_strongly_connected_components OK +41: test_connected_components OK +41: test_prims_algorithm OK +41: test_union_find OK +41: test_kruskals_algorithm OK +41: test_mst_all OK +41: test_dag_shortest_path OK +41: test_bellmann_ford OK +41: test_dijkstra OK +41: test_all_pairs_shortest_path OK +41: test_floyd_warshall OK +41: test_transitive_closure OK +41: test_ford_fulkerson OK +41: test_path_growing_algorithm OK +41: test_longest_increasing_subsequence OK +41: test_longest_common_subsequence OK +41: test_heaviest_increasing_subsequence OK +41: test_hmm_algorithm OK 41: ************************************** -41: Total Tests: 14 +41: Total Tests: 22 41: Skipped: 0 41: Errors: 0 41: ************************************** - 33/414 Test #41: test_test_bed_io .................................................................. Passed 0.26 sec -42: TEST SUITE test_blast + 33/407 Test #41: test_test_graph_algorithms ........................................................ Passed 0.04 sec +42: TEST SUITE test_graph_align 42: SEQAN_ENABLE_DEBUG == 1 42: SEQAN_ENABLE_TESTING == 1 42: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 42: SEQAN_ASYNC_IO == 1 -42: test_blast_program OK -42: test_blast_context_targs OK -42: test_blast_scoring_scheme_conversion OK -42: test_blast_scoring_scheme OK -42: test_blast_blastmatch_stats_and_score OK -42: test_blast_blastmatch_bit_score_e_value OK -42: test_blast_write_lowlevel OK -42: test_blast_write_tabular_without_comments OK -42: test_blast_write_tabular_without_comments_customfields OK -42: test_blast_write_tabular_without_comments_legacy OK -42: test_blast_write_tabular_without_comments_constexpr OK -42: test_blast_write_tabular_without_comments_customfields_constexpr OK -42: test_blast_write_tabular_without_comments_legacy_constexpr OK -42: test_blast_write_tabular_with_comments OK -42: test_blast_write_tabular_with_comments_customfields OK -42: test_blast_write_tabular_with_comments_legacy OK -42: test_blast_write_tabular_with_comments_constexpr OK -42: test_blast_write_tabular_with_comments_customfields_constexpr OK -42: test_blast_write_tabular_with_comments_legacy_constexpr OK -42: test_blast_write_report OK -42: test_blast_write_report_constexpr OK -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: Test_Refinement_AlignmentGraphNoEdgeWeights OK +42: Test_Refinement_AlignmentGraphEdgeWeights OK +42: Test_Refinement_AlignmentGraphIterators OK +42: Test_Refinement_AlignmentGraphOutput OK +42: Test_Refinement_HeaviestCommonSubsequence OK +42: Test_Refinement_OutEdgeIteratorAlignment OK +42: RefineMatchesSelfEdges OK +42: RefineAlign SKIPPED +42: RefineInexactFragment OK 42: ************************************** -42: Total Tests: 35 -42: Skipped: 0 +42: Total Tests: 9 +42: Skipped: 1 42: Errors: 0 42: ************************************** -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_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 -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 -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 -43: TEST SUITE test_consensus + 34/407 Test #42: test_test_graph_align ............................................................. Passed 0.03 sec +43: TEST SUITE test_graph_msa 43: SEQAN_ENABLE_DEBUG == 1 43: SEQAN_ENABLE_TESTING == 1 43: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 43: SEQAN_ASYNC_IO == 1 -43: test_consensus_realign_one_contig_small OK -43: test_consensus_consensus_score_sequence_entry_consensus_score OK -43: test_consensus_consensus_score_sequence_entry_fractional_score OK -43: test_consensus_consensus_score_sequence_entry_weightedconsensus_score OK -43: test_consensus_sequence_entry_for_score_metafunction_consensus_score OK -43: test_consensus_sequence_entry_for_score_metafunction_fractional_score OK -43: test_consensus_sequence_entry_for_score_metafunction_weightedconsensus_score OK -43: test_consensus_sequence_entry_for_score_consensus_score OK -43: test_consensus_sequence_entry_for_score_fractional_score OK -43: test_consensus_sequence_entry_for_score_weightedconsensus_score OK -43: test_consensus_host_consensus_score OK -43: test_consensus_host_fractional_score OK -43: test_consensus_host_weightedconsensus_score OK -43: test_consensus_position_consensus_score OK -43: test_consensus_position_fractional_score OK -43: test_consensus_position_weightedconsensus_score OK -43: test_consensus_value_consensus_score OK -43: test_consensus_value_fractional_score OK -43: test_consensus_value_weightedconsensus_score OK -43: ************************************** -43: Total Tests: 19 -43: Skipped: 0 -43: Errors: 0 -43: ************************************** -44: TEST SUITE test_consensus +43: test_graph_msa_guide_tree_neighbour_joining OK +44: TEST SUITE test_graph_types_property_map 44: SEQAN_ENABLE_DEBUG == 1 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 +44: test_graph_types_property_map_external OK +44: test_graph_types_property_map_external_assign_vertex_map OK +44: test_graph_types_property_map_external_assign_edge_map OK +44: test_graph_types_property_internal_pointer_map OK +44: test_graph_types_property_internal_pointer_map_assign_edge_map_member OK +44: test_graph_types_property_internal_map OK +44: test_graph_types_property_internal_map_assign_edge_map OK +44: ************************************** +44: Total Tests: 7 +44: Skipped: 0 +44: Errors: 0 +44: ************************************** + 35/407 Test #44: test_test_graph_types_property_map ................................................ Passed 0.03 sec +45: TEST SUITE test_graph_types_derived 45: SEQAN_ENABLE_DEBUG == 1 45: SEQAN_ENABLE_TESTING == 1 45: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 45: SEQAN_ASYNC_IO == 1 -45: test_myers_find_begin OK -46: TEST SUITE test_gff_io +45: test_graph_types_derived_set_oracle OK +45: test_graph_types_derived_trie OK +45: test_graph_types_derived_oracle OK +45: ************************************** +45: Total Tests: 3 +45: Skipped: 0 +45: Errors: 0 +45: ************************************** + 36/407 Test #45: test_test_graph_types_derived ..................................................... Passed 0.02 sec +46: TEST SUITE test_graph_types_iterators 46: SEQAN_ENABLE_DEBUG == 1 46: SEQAN_ENABLE_TESTING == 1 46: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 46: SEQAN_ASYNC_IO == 1 -46: test_store_io_read_record_context_gff OK -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: test_graph_types_iterators_vertex_iterator OK +46: test_graph_types_iterators_out_edge_iterator OK +46: test_graph_types_iterators_edge_iterator OK +46: test_graph_types_iterators_ajacency_iterator OK +46: test_graph_types_bfs_iter OK +46: test_graph_types_dfs_preorder_iter OK 46: ************************************** -46: Total Tests: 12 +46: Total Tests: 6 46: Skipped: 0 46: Errors: 0 46: ************************************** -47: TEST SUITE test_graph_algorithms +test 50 + Start 50: test_test_index_crosscompare_char + +50: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char +50: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +50: Test timeout computed to be: 10000000 +test 51 + Start 51: test_test_index_crosscompare_char_dfi + +51: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char_dfi +51: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +51: Test timeout computed to be: 10000000 +test 52 + Start 52: test_test_index_crosscompare_dna + +52: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna +52: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +52: Test timeout computed to be: 10000000 +test 53 + Start 53: test_test_index_crosscompare_dna_dfi + +53: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna_dfi +53: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +53: Test timeout computed to be: 10000000 +test 54 + Start 54: test_test_index_qgram + +54: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_qgram +54: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +54: Test timeout computed to be: 10000000 +test 55 + Start 55: test_test_index_sa_bwtwalk + +55: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_sa_bwtwalk +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_shapes + +56: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_shapes +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 +47: TEST SUITE test_graph_types_property_map 47: SEQAN_ENABLE_DEBUG == 1 47: SEQAN_ENABLE_TESTING == 1 47: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 47: SEQAN_ASYNC_IO == 1 -47: test_heap_tree OK -47: test_breadth_first_search OK -47: test_depth_first_search OK -47: test_topological_sort OK -47: test_strongly_connected_components OK -47: test_connected_components OK -47: test_prims_algorithm OK -47: test_union_find OK -47: test_kruskals_algorithm OK -47: test_mst_all OK -47: test_dag_shortest_path OK -47: test_bellmann_ford OK -47: test_dijkstra OK -47: test_all_pairs_shortest_path OK -47: test_floyd_warshall OK -47: test_transitive_closure OK -47: test_ford_fulkerson OK -47: test_path_growing_algorithm OK -47: test_longest_increasing_subsequence OK -47: test_longest_common_subsequence OK -47: test_heaviest_increasing_subsequence OK -47: test_hmm_algorithm OK +47: test_graph_types_types_directed OK +47: test_graph_types_types_undirected OK +47: test_graph_types_types_automaton OK +47: test_graph_types_types_word_graph OK +47: test_graph_types_types_word_tree OK +47: test_graph_types_types_hmm OK 47: ************************************** -47: Total Tests: 22 +47: Total Tests: 6 47: Skipped: 0 47: Errors: 0 47: ************************************** -48: TEST SUITE test_graph_align +48: TEST SUITE test_graph_types_utils 48: SEQAN_ENABLE_DEBUG == 1 48: SEQAN_ENABLE_TESTING == 1 48: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 48: SEQAN_ASYNC_IO == 1 -48: Test_Refinement_AlignmentGraphNoEdgeWeights OK -48: Test_Refinement_AlignmentGraphEdgeWeights OK -48: Test_Refinement_AlignmentGraphIterators OK -48: Test_Refinement_AlignmentGraphOutput OK -48: Test_Refinement_HeaviestCommonSubsequence OK -48: Test_Refinement_OutEdgeIteratorAlignment OK -48: RefineMatchesSelfEdges OK -48: RefineAlign SKIPPED -48: RefineInexactFragment OK +48: test_graph_types_utils_graph_drawing OK 48: ************************************** -48: Total Tests: 9 -48: Skipped: 1 +48: Total Tests: 1 +48: Skipped: 0 48: Errors: 0 48: ************************************** -49: TEST SUITE test_graph_msa + 37/407 Test #46: test_test_graph_types_iterators ................................................... Passed 0.05 sec + 38/407 Test #47: test_test_graph_types_types ....................................................... Passed 0.05 sec + 39/407 Test #48: test_test_graph_types_utils ....................................................... Passed 0.05 sec +test 57 + Start 57: test_test_index_drawing + +57: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_drawing +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_fm_rank_dictionary + +58: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_rank_dictionary +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_fm_sparse_string + +59: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_sparse_string +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 +49: TEST SUITE test_index 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 -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 +49: testIndexModifiedStringReverseEsa OK +49: testIndexModifiedStringReverseFM OK +49: testIndexModifiedStringViewEsa OK +49: testIndexModifiedStringViewFM OK +49: testIssue519 OK +12: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +50: TEST SUITE test_index 50: SEQAN_ENABLE_DEBUG == 1 50: SEQAN_ENABLE_TESTING == 1 50: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 50: SEQAN_ASYNC_IO == 1 -50: test_graph_types_property_map_external OK -50: test_graph_types_property_map_external_assign_vertex_map OK -50: test_graph_types_property_map_external_assign_edge_map OK -50: test_graph_types_property_internal_pointer_map OK -50: test_graph_types_property_internal_pointer_map_assign_edge_map_member OK -50: test_graph_types_property_internal_map OK -50: test_graph_types_property_internal_map_assign_edge_map OK +50: testIndexCrossCompareChar OK 50: ************************************** -50: Total Tests: 7 +50: Total Tests: 1 50: Skipped: 0 50: Errors: 0 50: ************************************** -51: TEST SUITE test_graph_types_derived + 40/407 Test #50: test_test_index_crosscompare_char ................................................. Passed 0.05 sec +51: TEST SUITE test_index 51: SEQAN_ENABLE_DEBUG == 1 51: SEQAN_ENABLE_TESTING == 1 51: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 51: SEQAN_ASYNC_IO == 1 -51: test_graph_types_derived_set_oracle OK -51: test_graph_types_derived_trie OK -51: test_graph_types_derived_oracle OK +51: testIndexCrossCompareCharDfi OK 51: ************************************** -51: Total Tests: 3 +51: Total Tests: 1 51: Skipped: 0 51: Errors: 0 51: ************************************** -52: TEST SUITE test_graph_types_iterators + 41/407 Test #51: test_test_index_crosscompare_char_dfi ............................................. Passed 0.05 sec +52: TEST SUITE test_index 52: SEQAN_ENABLE_DEBUG == 1 52: SEQAN_ENABLE_TESTING == 1 52: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 52: SEQAN_ASYNC_IO == 1 -52: test_graph_types_iterators_vertex_iterator OK -52: test_graph_types_iterators_out_edge_iterator OK -52: test_graph_types_iterators_edge_iterator OK -52: test_graph_types_iterators_ajacency_iterator OK -52: test_graph_types_bfs_iter OK -52: test_graph_types_dfs_preorder_iter OK +52: testIndexCrossCompareDna OK +52: testIndexCrossCompareDnaStrings OK 52: ************************************** -52: Total Tests: 6 +52: Total Tests: 2 52: Skipped: 0 52: Errors: 0 52: ************************************** -53: TEST SUITE test_graph_types_property_map +53: TEST SUITE test_index 53: SEQAN_ENABLE_DEBUG == 1 53: SEQAN_ENABLE_TESTING == 1 53: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 53: SEQAN_ASYNC_IO == 1 -53: test_graph_types_types_directed OK -53: test_graph_types_types_undirected OK -53: test_graph_types_types_automaton OK -53: test_graph_types_types_word_graph OK -53: test_graph_types_types_word_tree OK -53: test_graph_types_types_hmm OK +53: testIndexCrossCompareDnaDfi OK 53: ************************************** -53: Total Tests: 6 +53: Total Tests: 1 53: Skipped: 0 53: Errors: 0 53: ************************************** -54: TEST SUITE test_graph_types_utils + 42/407 Test #53: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.04 sec +54: TEST SUITE test_index 54: SEQAN_ENABLE_DEBUG == 1 54: SEQAN_ENABLE_TESTING == 1 54: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 54: SEQAN_ASYNC_IO == 1 -54: test_graph_types_utils_graph_drawing OK +54: testStepSize OK +54: testGappedShapes OK +54: testUngappedShapes OK +54: testUngappedQGramIndex OK +54: start +54: scan took 9.05292e-06 seconds. +54: start write +54: writing took 1.1754e-05 seconds. +54: reading took 2.10921e-06 seconds. +54: start +54: scan took 6.54906e-06 seconds. +54: start write +54: writing took 6.42682e-06 seconds. +54: reading took 1.58884e-06 seconds. +54: testUngappedQGramIndexMulti OK +54: testQGramFind OK 54: ************************************** -54: Total Tests: 1 +54: Total Tests: 6 54: Skipped: 0 54: Errors: 0 54: ************************************** + 43/407 Test #54: test_test_index_qgram ............................................................. Passed 0.03 sec 55: TEST SUITE test_index 55: SEQAN_ENABLE_DEBUG == 1 55: SEQAN_ENABLE_TESTING == 1 55: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 55: SEQAN_ASYNC_IO == 1 -55: testIndexModifiedStringReverseEsa OK -55: testIndexModifiedStringReverseFM OK -55: testIndexModifiedStringViewEsa OK -55: testIndexModifiedStringViewFM OK -55: testIssue519 OK 56: TEST SUITE test_index 56: SEQAN_ENABLE_DEBUG == 1 56: SEQAN_ENABLE_TESTING == 1 56: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 56: SEQAN_ASYNC_IO == 1 -56: testIndexCrossCompareChar OK +56: testShapes OK 56: ************************************** 56: Total Tests: 1 56: Skipped: 0 56: Errors: 0 56: ************************************** -57: TEST SUITE test_index + 44/407 Test #56: test_test_index_shapes ............................................................ Passed 0.02 sec +test 60 + Start 60: test_test_index_base + +60: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_base +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_fm + +61: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm +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_bifm + +62: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_bifm +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_vstree + +63: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_vstree +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_view + +64: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_view +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 +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK + 45/407 Test #52: test_test_index_crosscompare_dna .................................................. Passed 0.09 sec +38: test_consensus_consensus_alignment_coordinates OK +57: TEST SUITE test_index_drawing 57: SEQAN_ENABLE_DEBUG == 1 57: SEQAN_ENABLE_TESTING == 1 57: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 57: SEQAN_ASYNC_IO == 1 -57: testIndexCrossCompareCharDfi OK +57: test_index_drawing_esa_dot OK 57: ************************************** 57: Total Tests: 1 57: Skipped: 0 57: Errors: 0 57: ************************************** -58: TEST SUITE test_index + 46/407 Test #57: test_test_index_drawing ........................................................... Passed 0.07 sec +58: TEST SUITE tests 58: SEQAN_ENABLE_DEBUG == 1 58: SEQAN_ENABLE_TESTING == 1 58: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 58: SEQAN_ASYNC_IO == 1 -58: testIndexCrossCompareDna OK -58: testIndexCrossCompareDnaStrings OK -58: ************************************** -58: Total Tests: 2 -58: Skipped: 0 -58: Errors: 0 -58: ************************************** -59: TEST SUITE test_index +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 0u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +59: TEST SUITE test_fm_index_sparse_string 59: SEQAN_ENABLE_DEBUG == 1 59: SEQAN_ENABLE_TESTING == 1 59: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 59: SEQAN_ASYNC_IO == 1 -59: testIndexCrossCompareDnaDfi OK +59: sparse_string_get_value OK +59: sparse_string_clear_length_resize OK +59: sparse_string_empty OK +59: sparse_string_get_fibre OK 59: ************************************** -59: Total Tests: 1 +59: Total Tests: 4 59: Skipped: 0 59: Errors: 0 59: ************************************** -60: TEST SUITE test_index + 47/407 Test #59: test_test_index_fm_sparse_string .................................................. Passed 0.06 sec +test 65 + Start 65: test_test_index_finder + +65: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_finder +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 +test 66 + Start 66: test_test_find_backtracking + +66: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_backtracking +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_repeats + +67: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_repeats +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 +12: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +12: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +43: test_graph_msa_guide_tree_upgma_weight_avg OK +18: test_alignment_free_n2_dna5 OK +18: test_alignment_free_calculate_probability OK +18: test_alignment_free_calculate_variance OK +18: test_alignment_free_calculate_covariance OK +15: test_align_parallel_wavefront_multiple_global_alignment OK +60: TEST SUITE tests 60: SEQAN_ENABLE_DEBUG == 1 60: SEQAN_ENABLE_TESTING == 1 60: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 60: SEQAN_ASYNC_IO == 1 -60: testStepSize OK -60: testGappedShapes OK -60: testUngappedShapes OK -60: testUngappedQGramIndex OK -60: start -60: scan took 1.9823e-05 seconds. -60: start write -60: writing took 1.3601e-05 seconds. -60: reading took 7.82078e-07 seconds. -60: start -60: scan took 1.4697e-05 seconds. -60: start write -60: writing took 3.65102e-06 seconds. -60: reading took 6.30971e-07 seconds. -60: testUngappedQGramIndexMulti OK -60: testQGramFind OK -60: ************************************** -60: Total Tests: 6 -60: Skipped: 0 -60: Errors: 0 -60: ************************************** -61: TEST SUITE test_index +60: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +60: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +60: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_IndexCreate type parameter seqan::Index >, seqan::FMIndex > > OK +61: TEST SUITE tests 61: SEQAN_ENABLE_DEBUG == 1 61: SEQAN_ENABLE_TESTING == 1 61: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 61: SEQAN_ASYNC_IO == 1 -61: testBWTWalk OK -61: ************************************** -61: Total Tests: 1 -61: Skipped: 0 -61: Errors: 0 -61: ************************************** -62: TEST SUITE test_index +61: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +62: TEST SUITE tests 62: SEQAN_ENABLE_DEBUG == 1 62: SEQAN_ENABLE_TESTING == 1 62: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 62: SEQAN_ASYNC_IO == 1 -62: testShapes OK -62: ************************************** -62: Total Tests: 1 -62: Skipped: 0 -62: Errors: 0 -62: ************************************** -63: TEST SUITE test_index_drawing +63: TEST SUITE tests 63: SEQAN_ENABLE_DEBUG == 1 63: SEQAN_ENABLE_TESTING == 1 63: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 63: SEQAN_ASYNC_IO == 1 -63: test_index_drawing_esa_dot OK -63: ************************************** -63: Total Tests: 1 -63: Skipped: 0 -63: Errors: 0 -63: ************************************** -64: TEST SUITE tests +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::FMIndex > > OK +64: TEST SUITE test_index_view 64: SEQAN_ENABLE_DEBUG == 1 64: SEQAN_ENABLE_TESTING == 1 64: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 64: SEQAN_ASYNC_IO == 1 -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_Constructor type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 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, 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, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 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, 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 -65: TEST SUITE test_fm_index_sparse_string +64: test_index_view_basic OK +64: ************************************** +64: Total Tests: 1 +64: Skipped: 0 +64: Errors: 0 +64: ************************************** + 48/407 Test #64: test_test_index_view .............................................................. Passed 0.06 sec +test 68 + Start 68: test_test_journaled_set + +68: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_set +68: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set +68: Test timeout computed to be: 10000000 +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +65: TEST SUITE tests 65: SEQAN_ENABLE_DEBUG == 1 65: SEQAN_ENABLE_TESTING == 1 65: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 65: SEQAN_ASYNC_IO == 1 -65: sparse_string_get_value OK -65: sparse_string_clear_length_resize OK -65: sparse_string_empty OK -65: sparse_string_get_fibre OK -65: ************************************** -65: Total Tests: 4 -65: Skipped: 0 -65: Errors: 0 -65: ************************************** -66: TEST SUITE tests +65: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::IndexSa > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::IndexEsa > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::FMIndex > > OK +66: TEST SUITE test_find_backtracking_exp 66: SEQAN_ENABLE_DEBUG == 1 66: SEQAN_ENABLE_TESTING == 1 66: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 66: SEQAN_ASYNC_IO == 1 -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::FMIndex > > OK - 34/414 Test #42: test_blast ........................................................................ Passed 0.36 sec - 35/414 Test #43: test_test_consensus ............................................................... Passed 0.35 sec - 36/414 Test #46: test_test_gff_io .................................................................. Passed 0.32 sec - 37/414 Test #47: test_test_graph_algorithms ........................................................ Passed 0.30 sec - 38/414 Test #48: test_test_graph_align ............................................................. Passed 0.29 sec - 39/414 Test #50: test_test_graph_types_property_map ................................................ Passed 0.28 sec - 40/414 Test #51: test_test_graph_types_derived ..................................................... Passed 0.28 sec - 41/414 Test #52: test_test_graph_types_iterators ................................................... Passed 0.27 sec - 42/414 Test #53: test_test_graph_types_types ....................................................... Passed 0.26 sec - 43/414 Test #54: test_test_graph_types_utils ....................................................... Passed 0.25 sec - 44/414 Test #56: test_test_index_crosscompare_char ................................................. Passed 0.23 sec - 45/414 Test #57: test_test_index_crosscompare_char_dfi ............................................. Passed 0.22 sec - 46/414 Test #58: test_test_index_crosscompare_dna .................................................. Passed 0.21 sec - 47/414 Test #59: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.20 sec - 48/414 Test #60: test_test_index_qgram ............................................................. Passed 0.19 sec - 49/414 Test #62: test_test_index_shapes ............................................................ Passed 0.18 sec - 50/414 Test #63: test_test_index_drawing ........................................................... Passed 0.17 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 - -77: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_traverser -77: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -77: Test timeout computed to be: 10000000 -test 78 - Start 78: test_journaled_string_tree_find - -78: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_find -78: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -78: Test timeout computed to be: 10000000 -test 79 - Start 79: test_test_map - -79: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_map -79: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map -79: Test timeout computed to be: 10000000 -test 80 - Start 80: test_test_misc - -80: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_misc -80: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc -80: Test timeout computed to be: 10000000 -test 81 - Start 81: test_test_modifier - -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 -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 - 52/414 Test #61: test_test_index_sa_bwtwalk ........................................................ Passed 0.44 sec -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 -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 -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 -20: test_align_parallel_wavefront_multiple_global_alignment OK -67: TEST SUITE tests +66: test_find_backtracking_multiple_hamming_banana_vs_ada_ana OK +66: test_find_backtracking_multiple_edit_banana_vs_ada_ana OK +66: ************************************** +66: Total Tests: 2 +66: Skipped: 0 +66: Errors: 0 +66: ************************************** + 49/407 Test #66: test_test_find_backtracking ....................................................... Passed 0.06 sec +67: TEST SUITE test_index_repeats 67: SEQAN_ENABLE_DEBUG == 1 67: SEQAN_ENABLE_TESTING == 1 67: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 67: SEQAN_ASYNC_IO == 1 -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK -68: TEST SUITE tests +67: test_index_repeats_period_1_ignore_minlen_for_ns OK +test 69 + Start 69: test_test_journaled_string_tree + +69: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree +69: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +69: Test timeout computed to be: 10000000 +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +68: TEST SUITE test_journaled_set 68: SEQAN_ENABLE_DEBUG == 1 68: SEQAN_ENABLE_TESTING == 1 68: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 68: SEQAN_ASYNC_IO == 1 -69: TEST SUITE tests +68: test_journaled_set_constructor OK +68: test_journaled_set_assign OK +68: test_journaled_set_set_host OK +68: test_journaled_set_host OK +68: test_journaled_set_assign_value OK +68: test_journaled_set_append_value OK +68: test_journaled_set_value OK +68: test_journaled_set_clear OK +68: test_journaled_set_resize OK +68: test_journaled_set_empty OK +68: test_journaled_set_iterator OK +68: ************************************** +68: Total Tests: 11 +68: Skipped: 0 +68: Errors: 0 +68: ************************************** +12: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +12: ************************************** +12: Total Tests: 12 +12: Skipped: 0 +12: Errors: 0 +12: ************************************** +69: TEST SUITE test_journaled_string_tree 69: SEQAN_ENABLE_DEBUG == 1 69: SEQAN_ENABLE_TESTING == 1 69: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 69: SEQAN_ASYNC_IO == 1 -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::FMIndex > > OK -70: TEST SUITE test_index_view +69: test_journaled_string_tree_constructor OK +69: test_journaled_string_tree_length OK +69: test_journaled_string_tree_set_host OK +69: test_journaled_string_tree_host OK +69: test_journaled_string_tree_insert OK +69: test_journaled_string_tree_erase OK +69: test_journaled_string_tree_clear OK +69: test_journaled_string_tree_empty OK +69: test_journaled_string_tree_resize OK +69: test_journaled_string_tree_max_size OK +69: test_journaled_string_tree_size OK +69: ************************************** +69: Total Tests: 11 +69: Skipped: 0 +69: Errors: 0 +69: ************************************** + 50/407 Test #68: test_test_journaled_set ........................................................... Passed 0.05 sec + 51/407 Test #69: test_test_journaled_string_tree ................................................... Passed 0.03 sec +test 70 + Start 70: test_test_delta_map + +70: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_delta_map +70: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +70: Test timeout computed to be: 10000000 +test 71 + Start 71: test_journaled_string_tree_traverser + +71: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_traverser +71: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +71: Test timeout computed to be: 10000000 +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +70: TEST SUITE test_delta_map 70: SEQAN_ENABLE_DEBUG == 1 70: SEQAN_ENABLE_TESTING == 1 70: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 70: SEQAN_ASYNC_IO == 1 -70: test_index_view_basic OK +70: test_delta_map_delta_store_is_delta_type OK +70: test_delta_map_delta_store_select_delta_type OK +70: test_delta_map_delta_store_get_delta_store OK +70: test_delta_map_delta_store_add_delta_value OK +70: test_delta_map_delta_store_erase_delta_value OK +70: test_delta_map_delta_store_delta_value OK +70: test_delta_map_delta_store_clear OK +70: test_delta_map_delta_store_deletion_size OK +70: test_delta_map_delta_store_insertion_size OK +70: test_delta_map_delta_store_net_size OK +70: test_delta_map_insert OK +70: test_delta_map_erase OK +70: test_delta_map_lower_bound OK +70: test_delta_map_upper_bound OK +70: test_delta_map_count OK +70: test_delta_map_equal_range OK +70: test_delta_map_find OK +70: test_delta_map_size OK +70: test_delta_map_empty OK +70: test_delta_map_iterator OK +70: test_delta_map_iterator_copy_constructor OK +70: test_delta_map_iterator_assign OK +70: test_delta_map_iterator_value OK +70: test_delta_map_iterator_delta_value OK +70: test_delta_map_entry_delta_coverage OK +70: test_delta_map_entry_delta_type OK +70: test_delta_map_entry_delta_position OK 70: ************************************** -70: Total Tests: 1 +70: Total Tests: 27 70: Skipped: 0 70: Errors: 0 70: ************************************** - 53/414 Test #70: test_test_index_view .............................................................. Passed 0.35 sec -71: TEST SUITE tests +71: TEST SUITE test_journaled_string_tree_traverser 71: SEQAN_ENABLE_DEBUG == 1 71: SEQAN_ENABLE_TESTING == 1 71: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 71: SEQAN_ASYNC_IO == 1 -71: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::IndexSa > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::IndexEsa > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::FMIndex > > OK -72: TEST SUITE test_find_backtracking_exp +71: test_journaled_string_tree_traverser_constructor OK +71: test_journaled_string_tree_traverser_traverser OK + 52/407 Test #12: test_test_align_parallel_interface ................................................ Passed 0.44 sec + 53/407 Test #70: test_test_delta_map ............................................................... Passed 0.04 sec +test 72 + Start 72: test_journaled_string_tree_find + +72: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_find +72: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +72: Test timeout computed to be: 10000000 +test 73 + Start 73: test_test_map + +73: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_map +73: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map +73: Test timeout computed to be: 10000000 +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 0u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +67: test_index_repeats_period_1_no_ns OK +72: TEST SUITE test_journaled_string_tree_find 72: SEQAN_ENABLE_DEBUG == 1 72: SEQAN_ENABLE_TESTING == 1 72: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 72: SEQAN_ASYNC_IO == 1 -72: test_find_backtracking_multiple_hamming_banana_vs_ada_ana OK -72: test_find_backtracking_multiple_edit_banana_vs_ada_ana OK -72: ************************************** -72: Total Tests: 2 -72: Skipped: 0 -72: Errors: 0 -72: ************************************** - 54/414 Test #72: test_test_find_backtracking ....................................................... Passed 0.33 sec -73: TEST SUITE test_index_repeats +73: TEST SUITE test_map 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 +58: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +38: test_consensus_consensus_alignment_contig_ids OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +14: test_align_parallel_wavefront_multiple_global_alignment OK +14: ************************************** +14: Total Tests: 2 +14: Skipped: 0 +14: Errors: 0 +14: ************************************** + 54/407 Test #14: test_test_align_parallel_algorithm ................................................ Passed 0.53 sec +test 74 + Start 74: test_test_misc + +74: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_misc +74: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc +74: Test timeout computed to be: 10000000 +74: TEST SUITE test_misc 74: SEQAN_ENABLE_DEBUG == 1 74: SEQAN_ENABLE_TESTING == 1 74: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 74: SEQAN_ASYNC_IO == 1 -74: test_journaled_set_constructor OK -74: test_journaled_set_assign OK -74: test_journaled_set_set_host OK -74: test_journaled_set_host OK -74: test_journaled_set_assign_value OK -74: test_journaled_set_append_value OK -74: test_journaled_set_value OK -74: test_journaled_set_clear OK -74: test_journaled_set_resize OK -74: test_journaled_set_empty OK -74: test_journaled_set_iterator OK +74: test_misc_terminal_get_terminal_size OK +74: test_misc_bit_twiddling_pop_count_char OK +74: test_misc_bit_twiddling_pop_count_signed_char OK +74: test_misc_bit_twiddling_pop_count_unsigned_char OK +74: test_misc_bit_twiddling_pop_count_short OK +74: test_misc_bit_twiddling_pop_count_signed_short OK +74: test_misc_bit_twiddling_pop_count_unsigned_short OK +74: test_misc_bit_twiddling_pop_count_int OK +74: test_misc_bit_twiddling_pop_count_signed_int OK +74: test_misc_bit_twiddling_pop_count_unsigned_int OK +74: test_misc_bit_twiddling_pop_count_long OK +74: test_misc_bit_twiddling_pop_count_signed_long OK +74: test_misc_bit_twiddling_pop_count_unsigned_long OK +74: test_misc_bit_twiddling_pop_count_long_long OK +74: test_misc_bit_twiddling_pop_count_signed_long_long OK +74: test_misc_bit_twiddling_pop_count_unsigned_long_long OK +74: test_misc_bit_twiddling_pop_count_int8 OK +74: test_misc_bit_twiddling_pop_count_uint8 OK +74: test_misc_bit_twiddling_pop_count_int16 OK +74: test_misc_bit_twiddling_pop_count_uint16 OK +74: test_misc_bit_twiddling_pop_count_int32 OK +74: test_misc_bit_twiddling_pop_count_uint32 OK +74: test_misc_bit_twiddling_pop_count_int64 OK +74: test_misc_bit_twiddling_pop_count_uint64 OK +74: Interval_Tree__IntervalTreeTest_QueryAtBoundary OK +74: Interval_Tree__IntervalTreeTest_IntervalTree__int OK +74: Interval_Tree__IntervalTreeTest_IntervalTreeFromIterator__int OK +74: Interval_Tree__IntervalTreeTest_NonFullLength__int OK +74: Interval_Tree__IntervalTreeTest_AddInterval__int OK +74: Interval_Tree__IntervalTreeTest_TreeStructure__int OK +74: Interval_Tree__IntervalTreeTest_FindIntervalExcludeTouching__int OK +74: Interval_Tree__IntervalTreeTest_FindNoInterval__int OK +74: Interval_Tree__IntervalTreeTest_GraphMap__int_ComputeCenter_StoreIntervals OK +74: Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter OK +74: test_misc_accumulators_average_accumulator_int_average OK +74: test_misc_accumulators_average_accumulator_int_count OK +74: test_misc_accumulators_average_accumulator_int_sum OK +74: test_misc_accumulators_average_accumulator_int_clear OK +74: test_misc_accumulators_average_accumulator_double_average OK +74: test_misc_accumulators_average_accumulator_double_count OK +74: test_misc_accumulators_average_accumulator_double_sum OK +74: test_misc_accumulators_average_accumulator_double_clear OK +74: test_misc_edit_environment_string_enumerator_hamming OK +74: test_misc_edit_environment_string_enumerator_iterator_hamming OK +74: test_misc_edit_environment_string_enumerator_edit OK +74: test_misc_edit_environment_string_enumerator_iterator_edit OK 74: ************************************** -74: Total Tests: 11 +74: Total Tests: 46 74: Skipped: 0 74: Errors: 0 74: ************************************** - 55/414 Test #74: test_test_journaled_set ........................................................... Passed 0.32 sec -75: TEST SUITE test_journaled_string_tree -75: SEQAN_ENABLE_DEBUG == 1 -75: SEQAN_ENABLE_TESTING == 1 -75: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -75: SEQAN_ASYNC_IO == 1 -75: test_journaled_string_tree_constructor OK -75: test_journaled_string_tree_length OK -75: test_journaled_string_tree_set_host OK -75: test_journaled_string_tree_host OK -75: test_journaled_string_tree_insert OK -75: test_journaled_string_tree_erase OK -75: test_journaled_string_tree_clear OK -75: test_journaled_string_tree_empty OK -75: test_journaled_string_tree_resize OK -75: test_journaled_string_tree_max_size OK -75: test_journaled_string_tree_size OK -75: ************************************** -75: Total Tests: 11 -75: Skipped: 0 -75: Errors: 0 -75: ************************************** - 56/414 Test #75: test_test_journaled_string_tree ................................................... Passed 0.31 sec -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 +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK + 55/407 Test #74: test_test_misc .................................................................... Passed 0.02 sec +test 75 + Start 75: test_test_modifier -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 -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: ************************************** -21: test_align_parallel_wavefront_multiple_global_alignment 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: ************************************** -19: test_align_parallel_wavefront_multiple_global_alignment OK -19: ************************************** -19: Total Tests: 2 -19: Skipped: 0 -19: Errors: 0 -19: ************************************** -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 -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 -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -55: testIndexCreation OK +75: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_modifier +75: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier +75: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +43: test_graph_msa_guide_tree_upgma_avg OK +55: testBWTWalk OK 55: ************************************** -55: Total Tests: 6 +55: Total Tests: 1 55: Skipped: 0 55: Errors: 0 55: ************************************** -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 -76: TEST SUITE test_delta_map + 56/407 Test #55: test_test_index_sa_bwtwalk ........................................................ Passed 0.37 sec +test 76 + Start 76: test_test_modifier_cyclic_shape + +76: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_modifier_cyclic_shape +76: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape +76: Test timeout computed to be: 10000000 +75: TEST SUITE test_modifier +75: SEQAN_ENABLE_DEBUG == 1 +75: SEQAN_ENABLE_TESTING == 1 +75: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +75: SEQAN_ASYNC_IO == 1 +75: test_modifer_shortcuts_dna_string_reverse OK +75: test_modifer_shortcuts_dna5_string_reverse OK +75: test_modifer_shortcuts_rna_string_reverse OK +75: test_modifer_shortcuts_rna5_string_reverse OK +75: test_modifer_shortcuts_dna_string_complement OK +75: test_modifer_shortcuts_dna5_string_complement OK +75: test_modifer_shortcuts_rna_string_complement OK +75: test_modifer_shortcuts_rna5_string_complement OK +75: test_modifer_shortcuts_dna_string_reverse_complement OK +75: test_modifer_shortcuts_dna5_string_reverse_complement OK +75: test_modifer_shortcuts_rna_string_reverse_complement OK +75: test_modifer_shortcuts_rna5_string_reverse_complement OK +75: test_modifer_shortcuts_complement_in_place_string OK +75: test_modifer_shortcuts_complement_in_place_string_set OK +75: test_modifer_shortcuts_reverse_complement_in_place_string OK +75: test_modifer_shortcuts_reverse_complement_in_place_string_set OK +75: test_modifer_shortcuts_reverse_in_place_string OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +76: TEST SUITE test_modifier_cyclic_shape 76: SEQAN_ENABLE_DEBUG == 1 76: SEQAN_ENABLE_TESTING == 1 76: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 76: SEQAN_ASYNC_IO == 1 -76: test_delta_map_delta_store_is_delta_type OK -76: test_delta_map_delta_store_select_delta_type OK -76: test_delta_map_delta_store_get_delta_store OK -76: test_delta_map_delta_store_add_delta_value OK -76: test_delta_map_delta_store_erase_delta_value OK -76: test_delta_map_delta_store_delta_value OK -76: test_delta_map_delta_store_clear OK -76: test_delta_map_delta_store_deletion_size OK -76: test_delta_map_delta_store_insertion_size OK -76: test_delta_map_delta_store_net_size OK -76: test_delta_map_insert OK -76: test_delta_map_erase OK -76: test_delta_map_lower_bound OK -76: test_delta_map_upper_bound OK -76: test_delta_map_count OK -76: test_delta_map_equal_range OK -76: test_delta_map_find OK -76: test_delta_map_size OK -76: test_delta_map_empty OK -76: test_delta_map_iterator OK -76: test_delta_map_iterator_copy_constructor OK -76: test_delta_map_iterator_assign OK -76: test_delta_map_iterator_value OK -76: test_delta_map_iterator_delta_value OK -76: test_delta_map_entry_delta_coverage OK -76: test_delta_map_entry_delta_type OK -76: test_delta_map_entry_delta_position OK +76: test_modifier_cyclic_shape_cyclic_shape OK +76: test_modifier_cyclic_shape_iterator_generic_alloc_charstring OK +76: test_modifier_cyclic_shape_iterator_generic_mod_charstring OK +76: test_modifier_cyclic_shape_iterator_generic_infix_charstring OK +76: test_modifier_cyclic_shape_iterator_fixed_alloc_charstring OK +76: test_modifier_cyclic_shape_iterator_fixed_mod_charstring OK +76: test_modifier_cyclic_shape_iterator_fixed_infix_charstring OK +76: test_modifier_cyclic_shape_modified_string_construct OK +76: test_modifier_cyclic_shape_modified_string_functions OK +76: test_modifier_cyclic_shape_modified_iterator OK 76: ************************************** -76: Total Tests: 27 +76: Total Tests: 10 76: Skipped: 0 76: Errors: 0 76: ************************************** -77: TEST SUITE test_journaled_string_tree_traverser +67: test_index_repeats_period_1_many_ns OK +67: ************************************** +67: Total Tests: 3 +67: Skipped: 0 +67: Errors: 0 +67: ************************************** +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK + 57/407 Test #76: test_test_modifier_cyclic_shape ................................................... Passed 0.03 sec +test 77 + Start 77: test_test_multiple_translation_units + +77: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_multiple_translation_units +77: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units +77: Test timeout computed to be: 10000000 +77: TEST SUITE test_multiple_translation_units 77: SEQAN_ENABLE_DEBUG == 1 77: SEQAN_ENABLE_TESTING == 1 77: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 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 -78: TEST SUITE test_journaled_string_tree_find +77: ************************************** +77: Total Tests: 0 +77: Skipped: 0 +77: Errors: 0 +77: ************************************** + 58/407 Test #67: test_test_index_repeats ........................................................... Passed 0.32 sec + 59/407 Test #77: test_test_multiple_translation_units .............................................. Passed 0.01 sec +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +71: test_journaled_string_tree_traverser_init OK +71: test_journaled_string_tree_traverser_context_size OK +71: test_journaled_string_tree_traverser_branch_size OK +test 78 + Start 78: test_test_parallel + +78: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parallel +78: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel +78: Test timeout computed to be: 10000000 +test 79 + Start 79: test_test_parse_lm + +79: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parse_lm +79: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm +79: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 0u> > > OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +75: test_modifer_shortcuts_reverse_in_place_string_set OK +75: test_modifier_reverse_iterator_metafunctions OK +75: test_modifer_shortcuts_to_lower_in_place_string OK +75: test_modifer_shortcuts_to_lower_in_place_string_set OK +75: test_modifer_shortcuts_to_upper_in_place_string OK +75: test_modifer_shortcuts_to_upper_in_place_string_set OK +75: test_modifier_functors_functor_upcase OK +75: test_modifier_functors_functor_lowcase OK +75: test_modifier_functors_dna_complement OK +75: test_modifier_alphabet_size_metafunctions OK +75: test_modifier_DnaQ OK +75: test_modifier_alphabet_enumerate OK +75: test_modifier_alphabet_convert OK +75: test_modifier_alphabet_ord_value OK +75: test_modifier_view_iterator_metafunctions OK +75: test_modifier_view_iterator OK +75: test_modifier_view_string_caesar_chiffre OK +75: test_modifier_view_string_upper_case OK +75: test_modifier_view_string_low_case OK +75: test_modifier_view_string_alphabet_conversion OK +75: test_modifier_view_string_nested_modifier OK +75: test_modifier_convert_in_place OK +75: test_modifier_modified_string_metafunctions OK +75: test_modifier_modified_string_construct OK +75: test_modifier_modified_string_assignment OK +75: test_modifier_modified_string_length OK +75: test_modifier_modified_string_cascade OK +75: test_modifier_modified_iterator_construct OK +75: test_modifier_modified_string_mod_view OK +75: test_modifier_modified_string_mod_view_segment OK +75: test_modifier_modified_string_mod_pos OK +75: test_modifier_modified_string_const_literal OK +75: test_modifier_modified_string_reverse_segment OK +75: test_modifier_minimal OK +75: test_modifier_reverse_back_front OK +75: test_modified_string_padding_construction OK +75: test_modified_string_padding_expand OK +75: test_modified_string_padding_length OK +75: test_modified_string_padding_begin OK +75: test_modified_string_padding_end OK +75: test_modified_string_padding_difference OK +75: test_modified_string_padding_iterator OK +75: test_modified_string_padding_defect_2190 OK +75: ************************************** +75: Total Tests: 60 +75: Skipped: 0 +75: Errors: 0 +75: ************************************** +78: TEST SUITE test_parallel 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 +78: PARALLELISM ENABLED (CTEST_FULL_OUTPUT) +79: TEST SUITE test_parse_lm 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 +79: test_parse_lm_local_match_constructor OK +79: test_parse_lm_local_match_store_constructor OK +79: test_parse_lm_local_match_store_append_local_match OK +79: test_parse_lm_parse_lastz_general OK +79: test_parse_lm_parse_blastn_tabular OK +79: test_parse_lm_parse_stellar_gff OK +79: ************************************** +79: Total Tests: 6 +79: Skipped: 0 +79: Errors: 0 +79: ************************************** + 60/407 Test #75: test_test_modifier ................................................................ Passed 0.12 sec + 61/407 Test #79: test_test_parse_lm ................................................................ Passed 0.02 sec +71: test_journaled_string_tree_traverser_at_end OK +test 80 + Start 80: test_test_pipe + +80: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_pipe +80: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe +80: Test timeout computed to be: 10000000 +test 81 + Start 81: test_test_platform + +81: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_platform +81: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform +81: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +80: TEST SUITE test_pipe 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 +71: test_journaled_string_tree_traverser_is_base OK +13: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +81: TEST SUITE test_platform 81: SEQAN_ENABLE_DEBUG == 1 81: SEQAN_ENABLE_TESTING == 1 81: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 81: SEQAN_ASYNC_IO == 1 -81: test_modifer_shortcuts_dna_string_reverse OK -81: test_modifer_shortcuts_dna5_string_reverse OK -81: test_modifer_shortcuts_rna_string_reverse OK -81: test_modifer_shortcuts_rna5_string_reverse OK -81: test_modifer_shortcuts_dna_string_complement OK -81: test_modifer_shortcuts_dna5_string_complement OK -81: test_modifer_shortcuts_rna_string_complement OK -81: test_modifer_shortcuts_rna5_string_complement OK -81: test_modifer_shortcuts_dna_string_reverse_complement OK -81: test_modifer_shortcuts_dna5_string_reverse_complement OK -81: test_modifer_shortcuts_rna_string_reverse_complement OK -81: test_modifer_shortcuts_rna5_string_reverse_complement OK -81: test_modifer_shortcuts_complement_in_place_string OK -81: test_modifer_shortcuts_complement_in_place_string_set OK -81: test_modifer_shortcuts_reverse_complement_in_place_string OK -81: test_modifer_shortcuts_reverse_complement_in_place_string_set OK -81: test_modifer_shortcuts_reverse_in_place_string OK -81: test_modifer_shortcuts_reverse_in_place_string_set OK -81: test_modifier_reverse_iterator_metafunctions OK -81: test_modifer_shortcuts_to_lower_in_place_string OK -81: test_modifer_shortcuts_to_lower_in_place_string_set OK -81: test_modifer_shortcuts_to_upper_in_place_string OK -81: test_modifer_shortcuts_to_upper_in_place_string_set OK -81: test_modifier_functors_functor_upcase OK -81: test_modifier_functors_functor_lowcase OK -81: test_modifier_functors_dna_complement OK -81: test_modifier_alphabet_size_metafunctions OK -81: test_modifier_DnaQ OK -81: test_modifier_alphabet_enumerate OK -81: test_modifier_alphabet_convert OK -81: test_modifier_alphabet_ord_value OK -81: test_modifier_view_iterator_metafunctions OK -81: test_modifier_view_iterator OK -81: test_modifier_view_string_caesar_chiffre OK -81: test_modifier_view_string_upper_case OK -81: test_modifier_view_string_low_case OK -81: test_modifier_view_string_alphabet_conversion OK -81: test_modifier_view_string_nested_modifier OK -81: test_modifier_convert_in_place OK -81: test_modifier_modified_string_metafunctions OK -81: test_modifier_modified_string_construct OK -81: test_modifier_modified_string_assignment OK -81: test_modifier_modified_string_length OK -81: test_modifier_modified_string_cascade OK -81: test_modifier_modified_iterator_construct OK -81: test_modifier_modified_string_mod_view OK -81: test_modifier_modified_string_mod_view_segment OK -81: test_modifier_modified_string_mod_pos OK -81: test_modifier_modified_string_const_literal OK -81: test_modifier_modified_string_reverse_segment OK -81: test_modifier_minimal OK -81: test_modifier_reverse_back_front OK -81: test_modified_string_padding_construction OK -81: test_modified_string_padding_expand OK -81: test_modified_string_padding_length OK -81: test_modified_string_padding_begin OK -81: test_modified_string_padding_end OK -81: test_modified_string_padding_difference OK -81: test_modified_string_padding_iterator OK -81: test_modified_string_padding_defect_2190 OK +81: test_platform_range_based_for_loops1 OK +81: test_platform_range_based_for_loops2 OK 81: ************************************** -81: Total Tests: 60 +81: Total Tests: 2 81: Skipped: 0 81: Errors: 0 81: ************************************** -82: TEST SUITE test_modifier_cyclic_shape + 62/407 Test #81: test_test_platform ................................................................ Passed 0.04 sec +test 82 + Start 82: test_test_random + +82: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_random +82: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random +82: Test timeout computed to be: 10000000 +82: TEST SUITE test_random 82: SEQAN_ENABLE_DEBUG == 1 82: SEQAN_ENABLE_TESTING == 1 82: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 82: SEQAN_ASYNC_IO == 1 -82: test_modifier_cyclic_shape_cyclic_shape OK -82: test_modifier_cyclic_shape_iterator_generic_alloc_charstring OK -82: test_modifier_cyclic_shape_iterator_generic_mod_charstring OK -82: test_modifier_cyclic_shape_iterator_generic_infix_charstring OK -82: test_modifier_cyclic_shape_iterator_fixed_alloc_charstring OK -82: test_modifier_cyclic_shape_iterator_fixed_mod_charstring OK -82: test_modifier_cyclic_shape_iterator_fixed_infix_charstring OK -82: test_modifier_cyclic_shape_modified_string_construct OK -82: test_modifier_cyclic_shape_modified_string_functions OK -82: test_modifier_cyclic_shape_modified_iterator OK +82: test_default_rng OK +82: test_random_beta_constructors OK +82: test_random_beta_alpha OK +82: test_random_beta_beta OK +82: test_random_beta_min OK +82: test_random_beta_max OK +82: test_random_beta_param OK +82: test_random_beta_set_param OK +82: test_random_beta_write OK +82: test_random_beta_read OK +71: test_journaled_string_tree_traverser_advance OK +82: test_random_beta_functor OK +82: test_random_shuffle OK +82: test_random_cvt_beta_param OK +82: test_random_cvt_lognormal_param OK 82: ************************************** -82: Total Tests: 10 +82: Total Tests: 14 82: Skipped: 0 82: Errors: 0 82: ************************************** -83: TEST SUITE test_multiple_translation_units + 63/407 Test #82: test_test_random .................................................................. Passed 0.03 sec +test 83 + Start 83: test_test_realign + +83: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_realign +83: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign +83: Test timeout computed to be: 10000000 +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +58: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +83: TEST SUITE test_realign 83: SEQAN_ENABLE_DEBUG == 1 83: SEQAN_ENABLE_TESTING == 1 83: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 83: SEQAN_ASYNC_IO == 1 -83: ************************************** -83: Total Tests: 0 -83: Skipped: 0 -83: Errors: 0 -83: ************************************** -84: TEST SUITE test_parallel +83: test_realign_one_read_no_gaps OK +83: test_realign_one_read_with_gaps OK +71: test_journaled_string_tree_traverser_context_iterator OK +71: test_journaled_string_tree_traverser_container OK +49: testIndexCreation OK +49: ************************************** +49: Total Tests: 6 +49: Skipped: 0 +49: Errors: 0 +49: ************************************** +38: test_consensus_consensus_alignment_no_contig_ids OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK + 64/407 Test #49: test_test_index_creation .......................................................... Passed 0.65 sec +test 84 + Start 84: test_reduced_aminoacid + +84: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_reduced_aminoacid +84: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid +84: Test timeout computed to be: 10000000 +71: test_journaled_string_tree_traverser_basic_traversal OK +71: ************************************** +71: Total Tests: 11 +71: Skipped: 0 +71: Errors: 0 +71: ************************************** +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +78: test_parallel_atomic_inc OK +84: TEST SUITE test_reduced_aminoacid 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 +84: test_reduced_aminoacid_buchfink11 OK +84: test_reduced_aminoacid_cannata10 OK +84: test_reduced_aminoacid_li10 OK +84: test_reduced_aminoacid_solis10 OK +84: test_reduced_aminoacid_murphy5 OK +84: test_reduced_aminoacid_murphy10 OK +84: test_reduced_aminoacid_murphy10_moditerators OK + 65/407 Test #71: test_journaled_string_tree_traverser .............................................. Passed 0.45 sec +test 85 + Start 85: test_test_rna_io + +85: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_rna_io +85: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io +85: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +43: test_graph_msa_guide_tree_upgma_min OK +85: TEST SUITE test_rna_io 85: SEQAN_ENABLE_DEBUG == 1 85: SEQAN_ENABLE_TESTING == 1 85: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 85: SEQAN_ASYNC_IO == 1 -85: test_parse_lm_local_match_constructor OK -85: test_parse_lm_local_match_store_constructor OK -85: test_parse_lm_local_match_store_append_local_match OK -85: test_parse_lm_parse_lastz_general OK -85: test_parse_lm_parse_blastn_tabular OK -85: test_parse_lm_parse_stellar_gff OK +85: test_rna_io_read_connect OK +85: test_rna_io_read_dot_bracket OK +85: test_rna_io_read_vienna OK +85: test_rna_io_read_stockholm OK +85: test_rna_io_read_bpseq OK +85: test_rna_io_read_ebpseq OK +85: test_rna_io_write_connect OK +85: test_rna_io_write_dot_bracket OK +85: test_rna_io_write_vienna OK +85: test_rna_io_write_stockholm OK +85: test_rna_io_write_bpseq OK +85: test_rna_io_write_ebpseq OK +85: test_rna_io_convert OK 85: ************************************** -85: Total Tests: 6 +85: Total Tests: 13 85: Skipped: 0 85: Errors: 0 85: ************************************** -86: TEST SUITE test_pipe + 66/407 Test #85: test_test_rna_io .................................................................. Passed 0.04 sec +test 86 + Start 86: test_test_roi_io + +86: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_roi_io +86: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io +86: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +84: test_reduced_aminoacid_murphy10_modview_fmindex OK +84: ************************************** +84: Total Tests: 8 +84: Skipped: 0 +84: Errors: 0 +84: ************************************** +38: test_consensus_consensus_alignment_global_alignment OK +38: ************************************** +38: Total Tests: 4 +38: Skipped: 0 +38: Errors: 0 +38: ************************************** +83: test_realign_two_reads_stacked_at_beginning OK +86: TEST SUITE test_roi_io 86: SEQAN_ENABLE_DEBUG == 1 86: SEQAN_ENABLE_TESTING == 1 86: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 86: SEQAN_ASYNC_IO == 1 -87: TEST SUITE test_platform +86: test_roi_read_roi_record OK +86: test_roi_write_roi_record OK +86: test_roi_roi_file_read OK +86: test_roi_roi_file_write OK + 67/407 Test #38: test_test_consensus_v2 ............................................................ Passed 0.81 sec + 68/407 Test #84: test_reduced_aminoacid ............................................................ Passed 0.11 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +86: test_roi_io_isOpen_fileIn OK +86: test_roi_io_isOpen_fileOut OK +86: ************************************** +86: Total Tests: 6 +86: Skipped: 0 +86: Errors: 0 +86: ************************************** + 69/407 Test #86: test_test_roi_io .................................................................. Passed 0.04 sec +test 87 + Start 87: test_test_score + +87: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_score +87: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score +87: Test timeout computed to be: 10000000 +test 88 + Start 88: test_test_seeds_combination + +88: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_combination +88: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +88: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +test 89 + Start 89: test_test_seeds_extension + +89: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_extension +89: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +89: Test timeout computed to be: 10000000 +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +87: TEST SUITE test_score 87: SEQAN_ENABLE_DEBUG == 1 87: SEQAN_ENABLE_TESTING == 1 87: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 87: SEQAN_ASYNC_IO == 1 -87: test_platform_range_based_for_loops1 OK -87: test_platform_range_based_for_loops2 OK +87: test_score_gap_open OK +87: test_score_simple OK +87: test_score_edit OK +87: test_score_matrix OK +87: test_score_matrix_file OK +87: test_score_matrix_data OK +87: test_score_sequence_entry_for_score OK +87: test_score_dynamic_score_matrix OK 87: ************************************** -87: Total Tests: 2 +87: Total Tests: 8 87: Skipped: 0 87: Errors: 0 87: ************************************** -88: TEST SUITE test_random +88: TEST SUITE test_seeds_combination 88: SEQAN_ENABLE_DEBUG == 1 88: SEQAN_ENABLE_TESTING == 1 88: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 88: SEQAN_ASYNC_IO == 1 -88: test_default_rng OK -88: test_random_beta_constructors OK -88: test_random_beta_alpha OK -88: test_random_beta_beta OK -88: test_random_beta_min OK -88: test_random_beta_max OK -88: test_random_beta_param OK -88: test_random_beta_set_param OK -88: test_random_beta_write OK -88: test_random_beta_read OK -88: test_random_beta_functor OK -88: test_random_shuffle OK -88: test_random_cvt_beta_param OK -88: test_random_cvt_lognormal_param OK +88: test_seeds_combination_seeds_combineable_merge_chained OK +88: test_seeds_combination_seeds_combineable_simple_chaining_chained OK +88: test_seeds_combination_seeds_combineable_simple_chaos_chaining_chained OK +88: test_seeds_combination_combine_seeds_merge_chained OK +88: test_seeds_combination_combine_seeds_simple_chaining_chained OK +88: test_seeds_combination_combine_seeds_simple_chaos_chaining_chained OK 88: ************************************** -88: Total Tests: 14 +88: Total Tests: 6 88: Skipped: 0 88: Errors: 0 88: ************************************** -89: TEST SUITE test_realign + 70/407 Test #87: test_test_score ................................................................... Passed 0.06 sec + 71/407 Test #88: test_test_seeds_combination ....................................................... Passed 0.04 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +test 90 + Start 90: test_test_seeds_global_chaining + +90: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_global_chaining +90: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +90: Test timeout computed to be: 10000000 +test 91 + Start 91: test_test_seeds_seed_base + +91: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_base +91: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +91: Test timeout computed to be: 10000000 +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +89: TEST SUITE test_seeds_extension 89: SEQAN_ENABLE_DEBUG == 1 89: SEQAN_ENABLE_TESTING == 1 89: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 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 +89: test_seeds_extension_match_extension_simple OK +89: test_seeds_extension_ungapped_xdrop_extension_simple OK +89: test_seeds_extension_gapped_xdrop_extension_simple OK +89: test_seeds_extension_match_extension_chained OK +89: test_seeds_extension_ungapped_xdrop_extension_chained OK +89: ************************************** +89: Total Tests: 5 +89: Skipped: 0 +89: Errors: 0 +89: ************************************** + 72/407 Test #89: test_test_seeds_extension ......................................................... Passed 0.06 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +test 92 + Start 92: test_test_seeds_seed_chained + +92: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_chained +92: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +92: Test timeout computed to be: 10000000 +78: test_parallel_atomic_dec OK +90: TEST SUITE test_seeds_global_chaining 90: SEQAN_ENABLE_DEBUG == 1 90: SEQAN_ENABLE_TESTING == 1 90: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 90: SEQAN_ASYNC_IO == 1 -90: test_reduced_aminoacid_buchfink11 OK -90: test_reduced_aminoacid_cannata10 OK -90: test_reduced_aminoacid_li10 OK -90: test_reduced_aminoacid_solis10 OK -90: test_reduced_aminoacid_murphy5 OK -90: test_reduced_aminoacid_murphy10 OK -90: test_reduced_aminoacid_murphy10_moditerators OK -90: test_reduced_aminoacid_murphy10_modview_fmindex OK +90: test_seeds_global_chaining_sparse_length OK 90: ************************************** -90: Total Tests: 8 +90: Total Tests: 1 90: Skipped: 0 90: Errors: 0 90: ************************************** -91: TEST SUITE test_rna_io +91: TEST SUITE test_seeds_seed_base 91: SEQAN_ENABLE_DEBUG == 1 91: SEQAN_ENABLE_TESTING == 1 91: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 91: SEQAN_ASYNC_IO == 1 -91: test_rna_io_read_connect OK -91: test_rna_io_read_dot_bracket OK -91: test_rna_io_read_vienna OK -91: test_rna_io_read_stockholm OK -91: test_rna_io_read_bpseq OK -91: test_rna_io_read_ebpseq OK -91: test_rna_io_write_connect OK -91: test_rna_io_write_dot_bracket OK -91: test_rna_io_write_vienna OK -91: test_rna_io_write_stockholm OK -91: test_rna_io_write_bpseq OK -91: test_rna_io_write_ebpseq OK -91: test_rna_io_convert OK +91: test_seeds_seed_base_constructors_simple OK +91: test_seeds_seed_base_metafunctions_simple OK +91: test_seeds_seed_base_getters_setters_simple OK +91: test_seeds_seed_base_basic_functions_simple OK +91: test_seeds_seed_base_assign_simple OK +91: test_seeds_seed_base_constructors_chained OK +91: test_seeds_seed_base_metafunctions_chained OK +91: test_seeds_seed_base_getters_setters_chained OK +91: test_seeds_seed_base_basic_functions_chained OK +91: test_seeds_seed_base_assign_chained OK 91: ************************************** -91: Total Tests: 13 +91: Total Tests: 10 91: Skipped: 0 91: Errors: 0 91: ************************************** -92: TEST SUITE test_roi_io + 73/407 Test #90: test_test_seeds_global_chaining ................................................... Passed 0.04 sec + 74/407 Test #91: test_test_seeds_seed_base ......................................................... Passed 0.04 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +test 93 + Start 93: test_test_seeds_seed_diagonal + +93: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_diagonal +93: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +93: Test timeout computed to be: 10000000 +test 94 + Start 94: test_test_seeds_seed_set_base + +94: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_base +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 +15: test_align_parallel_wavefront_multiple_global_alignment_simd OK +15: ************************************** +15: Total Tests: 3 +15: Skipped: 0 +15: Errors: 0 +15: ************************************** + 75/407 Test #15: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 1.09 sec +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +92: TEST SUITE test_seeds_seed_chained 92: SEQAN_ENABLE_DEBUG == 1 92: SEQAN_ENABLE_TESTING == 1 92: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 92: SEQAN_ASYNC_IO == 1 -92: test_roi_read_roi_record OK -92: test_roi_write_roi_record OK -92: test_roi_roi_file_read OK -92: test_roi_roi_file_write OK -92: test_roi_io_isOpen_fileIn OK -92: test_roi_io_isOpen_fileOut OK +92: test_seeds_seed_chained_assign OK +92: test_seeds_seed_chained_metafunctions OK +92: test_seeds_seed_chained_append_diagonal OK +92: test_seeds_seed_chained_truncate_diagonals OK +92: test_seeds_seed_chained_iterators OK +92: test_seeds_seed_chained_front_back OK 92: ************************************** 92: Total Tests: 6 92: Skipped: 0 92: Errors: 0 92: ************************************** -93: TEST SUITE test_score + 76/407 Test #92: test_test_seeds_seed_chained ...................................................... Passed 0.05 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +test 95 + Start 95: test_test_seeds_seed_set_unordered + +95: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_unordered +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_align_banded_chain_impl + +96: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_align_banded_chain_impl +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 +93: TEST SUITE test_seeds_seed_diagonal 93: SEQAN_ENABLE_DEBUG == 1 93: SEQAN_ENABLE_TESTING == 1 93: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 93: SEQAN_ASYNC_IO == 1 -93: test_score_gap_open OK -93: test_score_simple OK -93: test_score_edit OK -93: test_score_matrix OK -93: test_score_matrix_file OK -93: test_score_matrix_data OK -93: test_score_sequence_entry_for_score OK -93: test_score_dynamic_score_matrix OK +93: test_seeds_seed_diagonal_constructors OK +93: test_seeds_seed_diagonal_metafunctions OK 93: ************************************** -93: Total Tests: 8 +93: Total Tests: 2 93: Skipped: 0 93: Errors: 0 93: ************************************** - 57/414 Test #19: test_test_align_parallel_algorithm ................................................ Passed 0.85 sec - 58/414 Test #44: test_test_consensus_v2 ............................................................ Passed 0.67 sec - 59/414 Test #49: test_test_graph_msa ............................................................... Passed 0.63 sec - 60/414 Test #55: test_test_index_creation .......................................................... Passed 0.58 sec - 61/414 Test #73: test_test_index_repeats ........................................................... Passed 0.40 sec - 62/414 Test #76: test_test_delta_map ............................................................... Passed 0.32 sec - 63/414 Test #80: test_test_misc .................................................................... Passed 0.26 sec - 64/414 Test #81: test_test_modifier ................................................................ Passed 0.25 sec - 65/414 Test #82: test_test_modifier_cyclic_shape ................................................... Passed 0.25 sec - 66/414 Test #83: test_test_multiple_translation_units .............................................. Passed 0.24 sec - 67/414 Test #85: test_test_parse_lm ................................................................ Passed 0.21 sec - 68/414 Test #87: test_test_platform ................................................................ Passed 0.18 sec - 69/414 Test #88: test_test_random .................................................................. Passed 0.17 sec - 70/414 Test #91: test_test_rna_io .................................................................. Passed 0.13 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 - -105: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence -105: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -105: Test timeout computed to be: 10000000 -test 106 - Start 106: test_test_sequence_v2 - -106: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_v2 -106: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -106: Test timeout computed to be: 10000000 -test 107 - Start 107: test_test_stringset_v2 - -107: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stringset_v2 -107: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -107: Test timeout computed to be: 10000000 -test 108 - Start 108: test_test_sequence_journaled - -108: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_journaled -108: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled -108: Test timeout computed to be: 10000000 -test 109 - Start 109: test_test_simd_vector - -109: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector -109: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -109: Test timeout computed to be: 10000000 -test 110 - Start 110: test_test_simd_vector_sse4_host - -110: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_sse4 -110: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -110: Test timeout computed to be: 10000000 -test 111 - Start 111: test_test_simd_vector_avx2_host - -111: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_avx2 -111: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -111: Test timeout computed to be: 10000000 -test 112 - Start 112: test_test_simple_intervals_io - -112: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simple_intervals_io -112: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io -112: Test timeout computed to be: 10000000 - 71/414 Test #90: test_reduced_aminoacid ............................................................ Passed 0.26 sec - 72/414 Test #92: test_test_roi_io .................................................................. Passed 0.23 sec - 73/414 Test #93: test_test_score ................................................................... Passed 0.22 sec -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, 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 -94: TEST SUITE test_seeds_combination +94: TEST SUITE test_seeds_seed_set_base 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: test_seeds_seed_set_base_container_functions_simple_unordered OK +94: test_seeds_seed_set_base_clear_simple OK +94: test_seeds_seed_set_base_clear_chained OK +94: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_right_chaining_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_impossible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_simple_unordered OK +94: test_seeds_seed_set_base_container_functions_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_right_chaining_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_impossible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_scored_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK +94: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_chained_unordered OK 94: ************************************** -94: Total Tests: 6 +94: Total Tests: 54 94: Skipped: 0 94: Errors: 0 94: ************************************** - 74/414 Test #94: test_test_seeds_combination ....................................................... Passed 0.20 sec -95: TEST SUITE test_seeds_extension + 77/407 Test #93: test_test_seeds_seed_diagonal ..................................................... Passed 0.07 sec + 78/407 Test #94: test_test_seeds_seed_set_base ..................................................... Passed 0.06 sec +test 97 + Start 97: test_test_seeds_banded_chain_alignment_interface + +97: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_banded_chain_alignment_interface +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_seq_io + +98: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seq_io +98: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io +98: Test timeout computed to be: 10000000 +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +95: TEST SUITE test_seeds_seed_set 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: test_seeds_seed_set_container_functions_unordered OK 95: ************************************** -95: Total Tests: 5 +95: Total Tests: 1 95: Skipped: 0 95: Errors: 0 95: ************************************** - 75/414 Test #95: test_test_seeds_extension ......................................................... Passed 0.19 sec -96: TEST SUITE test_seeds_global_chaining + 79/407 Test #95: test_test_seeds_seed_set_unordered ................................................ Passed 0.08 sec +96: TEST SUITE test_banded_chain_impl 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: ************************************** - 76/414 Test #96: test_test_seeds_global_chaining ................................................... Passed 0.18 sec -97: TEST SUITE test_seeds_seed_base +96: test_banded_chain_alignment_empty_set_linear OK +96: test_banded_chain_alignment_empty_set_affine OK +96: test_banded_chain_alignment_one_seed_linear OK +96: test_banded_chain_alignment_one_seed_affine OK +96: test_banded_chain_alignment_two_seeds_linear OK +96: test_banded_chain_alignment_two_seeds_affine OK +96: test_banded_chain_alignment_three_seeds_linear OK +96: test_banded_chain_alignment_three_seeds_affine OK +test 99 + Start 99: test_test_sequence + +99: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence +99: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +99: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +78: test_parallel_atomic_add OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +97: TEST SUITE test_banded_chain_alignment_interface 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: ************************************** - 77/414 Test #97: test_test_seeds_seed_base ......................................................... Passed 0.16 sec -98: TEST SUITE test_seeds_seed_chained +97: test_banded_chain_alignment_align_linear_global_one_score OK +97: test_banded_chain_alignment_align_linear_global_two_scores OK +97: test_banded_chain_alignment_align_linear_semi_one_score OK +97: test_banded_chain_alignment_align_linear_semi_two_scores OK +97: test_banded_chain_alignment_align_linear_overlap_one_score OK +97: test_banded_chain_alignment_align_linear_overlap_two_scores OK +97: test_banded_chain_alignment_align_affine_global_one_score OK +97: test_banded_chain_alignment_align_affine_global_two_scores OK +97: test_banded_chain_alignment_align_affine_semi_one_score OK +97: test_banded_chain_alignment_align_affine_semi_two_scores OK +97: test_banded_chain_alignment_align_affine_overlap_one_score OK +97: test_banded_chain_alignment_align_affine_overlap_two_scores OK +97: test_banded_chain_alignment_gaps_linear_global_one_score OK +97: test_banded_chain_alignment_gaps_linear_global_two_score OK +97: test_banded_chain_alignment_gaps_linear_semi_one_score OK +97: test_banded_chain_alignment_gaps_linear_semi_two_score OK +97: test_banded_chain_alignment_gaps_linear_overlap_one_score OK +97: test_banded_chain_alignment_gaps_linear_overlap_two_score OK +97: test_banded_chain_alignment_gaps_affine_global_one_score OK +97: test_banded_chain_alignment_gaps_affine_global_two_scores OK +97: test_banded_chain_alignment_gaps_affine_semi_one_score OK +97: test_banded_chain_alignment_gaps_affine_semi_two_scores OK +97: test_banded_chain_alignment_gaps_affine_overlap_one_score OK +97: test_banded_chain_alignment_gaps_affine_overlap_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_linear_global_one_score OK +97: test_banded_chain_alignment_alignmentgraph_linear_global_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_linear_semi_one_score OK +97: test_banded_chain_alignment_alignmentgraph_linear_semi_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_linear_overlap_one_score OK +97: test_banded_chain_alignment_alignmentgraph_linear_overlap_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_affine_global_one_score OK +98: TEST SUITE test_seq_io 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: ************************************** - 78/414 Test #98: test_test_seeds_seed_chained ...................................................... Passed 0.14 sec -test 113 - Start 113: test_test_statistics - -113: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_statistics -113: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics -113: Test timeout computed to be: 10000000 -test 114 - Start 114: test_test_store - -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 -test 115 - Start 115: test_test_stream - -115: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stream -115: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream -115: Test timeout computed to be: 10000000 -test 116 - Start 116: test_test_find_swift - -116: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_swift -116: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local -116: Test timeout computed to be: 10000000 -test 117 - Start 117: test_test_tabix_io - -117: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_tabix_io -117: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io -117: Test timeout computed to be: 10000000 -test 118 - Start 118: test_translation - -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 -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 -77: test_journaled_string_tree_traverser_basic_traversal OK -77: ************************************** -77: Total Tests: 11 -77: Skipped: 0 -77: Errors: 0 -77: ************************************** - 79/414 Test #77: test_journaled_string_tree_traverser .............................................. Passed 0.53 sec -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -84: test_parallel_atomic_dec 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 -99: TEST SUITE test_seeds_seed_diagonal +98: test_seq_io_sequence_file_recognize_file_type_gz_fasta OK +98: test_seq_io_sequence_file_recognize_file_type_bz2_fasta OK +98: test_seq_io_sequence_file_recognize_file_format_text_fasta OK +98: test_seq_io_sequence_file_recognize_file_format_text_fastq OK +97: test_banded_chain_alignment_alignmentgraph_affine_global_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_affine_semi_one_score OK +97: test_banded_chain_alignment_alignmentgraph_affine_semi_two_scores OK +97: test_banded_chain_alignment_alignmentgraph_affine_overlap_one_score OK +43: test_graph_msa_guide_tree_upgma_max OK +43: test_distances OK +96: test_banded_chain_alignment_special_seeds_linear OK +96: test_banded_chain_alignment_special_seeds_affine OK +96: test_banded_chain_alignment_band_extensions_linear OK +96: test_banded_chain_alignment_band_extensions_affine OK +83: test_realign_simple_case OK +99: TEST SUITE Sequence tests 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: ************************************** - 80/414 Test #99: test_test_seeds_seed_diagonal ..................................................... Passed 0.22 sec -100: TEST SUITE test_seeds_seed_set_base +99: test_sequence_adaptions_metafunctions_std_string OK +99: test_sequence_adaptions_iterators_std_string OK +99: test_sequence_adaptions_sequence_interface_std_string OK +99: test_sequence_adaptions_sequence_memory_std_string OK +99: test_sequence_adaptions_metafunctions_std_vector OK +99: test_sequence_adaptions_iterators_std_vector OK +99: test_sequence_adaptions_sequence_interface_std_vector OK +99: test_sequence_adaptions_sequence_memory_std_vector OK +99: test_sequence_adaptions_metafunctions_std_array OK +99: test_sequence_adaptions_iterators_std_array OK +99: test_sequence_adaptions_sequence_interface_std_array OK +99: test_sequence_adaptions_metafunctions_std_list OK +99: test_sequence_adaptions_iterators_std_list OK +99: test_sequence_adaptions_sequence_interface_std_list OK +99: Sequence_Interface OK +99: String_Base OK +99: String_Alloc OK +99: String_Array OK +99: String_Stack OK +99: String_Pointer OK +99: String_CStyle OK +97: test_banded_chain_alignment_alignmentgraph_affine_overlap_two_scores OK +97: test_banded_chain_alignment_fragments_linear_global_one_score OK +97: test_banded_chain_alignment_fragments_linear_global_two_scores OK +97: test_banded_chain_alignment_fragments_linear_semi_one_score OK +97: test_banded_chain_alignment_fragments_linear_semi_two_scores OK +97: test_banded_chain_alignment_fragments_linear_overlap_one_score OK +97: test_banded_chain_alignment_fragments_linear_overlap_two_scores OK +97: test_banded_chain_alignment_fragments_affine_global_one_score OK +97: test_banded_chain_alignment_fragments_affine_global_two_scores OK +97: test_banded_chain_alignment_fragments_affine_semi_one_score OK +97: test_banded_chain_alignment_fragments_affine_semi_two_scores OK +97: test_banded_chain_alignment_fragments_affine_overlap_one_score OK +97: test_banded_chain_alignment_fragments_affine_overlap_two_scores OK +96: test_banded_chain_alignment_issue_1020 OK +96: test_banded_chain_score_overflow_detection OK +96: ************************************** +96: Total Tests: 14 +96: Skipped: 0 +96: Errors: 0 +96: ************************************** +60: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK + 80/407 Test #96: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.11 sec +test 100 + Start 100: test_test_sequence_v2 + +100: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_v2 +100: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +100: Test timeout computed to be: 10000000 +97: test_banded_chain_alignment_stl_vector_adaption OK +97: ************************************** +97: Total Tests: 49 +97: Skipped: 0 +97: Errors: 0 +97: ************************************** +99: String_Packed OK +99: Std_String OK +99: Lexical OK +99: Combinatoric OK +99: Segment OK +99: StringSet_Owner_Default OK +99: StringSet_Concat_Owner_Default OK +99: StringSet_Concat_Owner_ConcatDirect OK +99: StringSet_Id_Dependent_Tight OK +99: StringSet_Id_Dependent_Generous OK +99: StringSetIdHolder_Char_Dependent_Tight OK +99: StringSetIdHolder_Char_Dependent_Generous OK +99: Infix OK +99: Suffix OK +99: ticket317 OK +99: ticket848 OK +99: DEFAULT CONSTRUCTING TestContainer 0x7ffda60f3bb0 +99: string.data_begin 0x5640c8fd8d70 +99: COPY CONSTRUCTING TestContainer 0x7ffda60f3bd0 +99: other 0x7ffda60f3bb0 +99: string.data_begin 0x5640c8fd9a20 +99: COPY CONSTRUCTING TestContainer 0x5640c8fd92f0 +99: other 0x7ffda60f3bd0 +99: string.data_begin 0x5640c8fd9ab0 +99: DECONSTRUCTING TestContainer 0x7ffda60f3bd0 +99: string.data_begin 0x5640c8fd9a20 +99: DECONSTRUCTING TestContainer 0x7ffda60f3bb0 +99: string.data_begin 0x5640c8fd8d70 +99: DECONSTRUCTING TestContainer 0x5640c8fd92f0 +99: string.data_begin 0x5640c8fd9ab0 +99: test_find_motif_memory_leak_ticket_364 OK +99: ticket901 OK + 81/407 Test #97: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.10 sec +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +test 101 + Start 101: test_test_stringset_v2 + +101: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stringset_v2 +101: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +101: Test timeout computed to be: 10000000 +43: test_libraries OK +100: TEST SUITE tests 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: ************************************** - 81/414 Test #100: test_test_seeds_seed_set_base ..................................................... Passed 0.21 sec -101: TEST SUITE test_seeds_seed_set +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter seqan::String > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_DefaultConstructible type parameter std::vector, std::allocator > > OK +100: StringTestCommon_DefaultConstructible type parameter std::vector > OK +100: StringTestCommon_DefaultConstructible type parameter std::vector > OK +100: StringTestCommon_DefaultConstructible type parameter std::vector > OK +100: StringTestCommon_DefaultConstructible type parameter std::deque, std::allocator > > OK +100: StringTestCommon_DefaultConstructible type parameter std::deque > OK +100: StringTestCommon_DefaultConstructible type parameter std::deque > OK +100: StringTestCommon_DefaultConstructible type parameter std::deque > OK +100: StringTestCommon_DefaultConstructible type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK +100: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK +100: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +101: TEST SUITE tests 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: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +101: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +101: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK 101: ************************************** -101: Total Tests: 1 -101: Skipped: 0 +101: Total Tests: 576 +101: Skipped: 18 101: Errors: 0 101: ************************************** - 82/414 Test #101: test_test_seeds_seed_set_unordered ................................................ Passed 0.20 sec -102: TEST SUITE test_banded_chain_impl +43: test_external_libraries OK +43: test_triplet_extension OK +43: test_sop OK +43: test_progressive OK +43: test_reversable_fragments OK +43: ************************************** +43: Total Tests: 12 +43: Skipped: 0 +43: Errors: 0 +43: ************************************** +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK + 82/407 Test #101: test_test_stringset_v2 ............................................................ Passed 0.05 sec +100: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter seqan::String > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_CopyConstructible type parameter std::vector, std::allocator > > OK +100: StringTestCommon_CopyConstructible type parameter std::vector > OK +100: StringTestCommon_CopyConstructible type parameter std::vector > OK +100: StringTestCommon_CopyConstructible type parameter std::vector > OK +100: StringTestCommon_CopyConstructible type parameter std::deque, std::allocator > > OK +100: StringTestCommon_CopyConstructible type parameter std::deque > OK +100: StringTestCommon_CopyConstructible type parameter std::deque > OK +100: StringTestCommon_CopyConstructible type parameter std::deque > OK +100: StringTestCommon_CopyConstructible type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +100: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +100: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK + 83/407 Test #43: test_test_graph_msa ............................................................... Passed 1.15 sec +test 102 + Start 102: test_test_sequence_journaled + +102: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_journaled +102: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled +102: Test timeout computed to be: 10000000 +test 103 + Start 103: test_test_simd_vector + +103: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector +103: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd +103: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +98: test_tag_select_intersect OK +98: test_seq_io_sequence_file_read_record_text_fasta OK +98: test_seq_io_sequence_file_read_all_text_fasta OK +98: test_seq_io_sequence_file_write_record_text_fasta OK +98: test_seq_io_sequence_file_write_all_text_fasta OK +98: test_seq_io_sequence_file_write_record_text_fastq_no_qual OK +98: test_seq_io_sequence_file_write_record_text_fastq_with_qual OK +98: test_seq_io_sequence_file_write_all_text_fastq_no_qual OK +98: test_seq_io_sequence_file_write_all_text_fastq_with_qual OK +98: test_seq_io_sequence_file_isOpen_fileIn OK +98: test_seq_io_sequence_file_isOpen_fileOut OK +98: test_seq_io_genomic_region_default_constructed OK +98: test_seq_io_genomic_region_from_string OK +98: test_seq_io_genomic_region_clear OK +98: test_seq_io_genomic_region_parse_chrom OK +98: test_seq_io_genomic_region_parse_chrom_begin OK +98: test_seq_io_genomic_region_parse_chrom_begin_end OK +98: test_seq_io_genomic_region_to_string_interval OK +98: test_seq_io_genomic_region_to_string_point OK +98: test_seq_io_genomic_fai_index_build OK +98: test_seq_io_genomic_fai_index_write OK +98: test_seq_io_genomic_fai_index_read OK +98: test_seq_io_genomic_fai_index_read_sequence OK +98: test_seq_io_genomic_fai_index_read_region OK +98: test_stream_read_embl_single_char_array_stream OK +98: test_stream_read_embl_record_char_array_stream OK +98: test_stream_read_embl_single_mmap OK +98: test_stream_read_embl_single_batch_mmap OK +98: test_stream_read_genbank_single_char_array_stream OK +98: test_stream_read_genbank_record_char_array_stream OK +102: TEST SUITE test_sequence_journaled 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 -102: test_banded_chain_alignment_special_seeds_affine OK -102: test_banded_chain_alignment_band_extensions_linear OK -102: test_banded_chain_alignment_band_extensions_affine OK -102: test_banded_chain_alignment_issue_1020 OK -102: test_banded_chain_score_overflow_detection OK -102: ************************************** -102: Total Tests: 14 -102: Skipped: 0 -102: Errors: 0 -102: ************************************** - 83/414 Test #102: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.19 sec -103: TEST SUITE test_banded_chain_alignment_interface +102: test_sequence_journaled_sorted_array_assign OK +102: test_sequence_journaled_sorted_array_set OK +102: test_sequence_journaled_sorted_array_host OK +102: test_sequence_journaled_sorted_array_clear OK +102: test_sequence_journaled_sorted_array_empty OK +102: test_sequence_journaled_sorted_array_erase_position OK +102: test_sequence_journaled_sorted_array_erase_begin_end OK +102: test_sequence_journaled_sorted_array_insert OK +102: test_sequence_journaled_sorted_array_insert_value OK +102: test_sequence_journaled_sorted_array_assign_value OK +102: test_sequence_journaled_sorted_array_subscript_operator OK +102: test_sequence_journaled_sorted_array_assign_infix OK +102: test_sequence_journaled_sorted_array_length OK +102: test_sequence_journaled_sorted_array_virtual_to_host_position OK +102: test_sequence_journaled_sorted_array_host_to_virtual_position OK +102: test_sequence_journaled_sorted_array_copy_constructor OK +102: test_sequence_journaled_sorted_array_begin_end_iterator OK +102: test_sequence_journaled_sorted_array_begin_end_const_iterator OK +102: test_sequence_journaled_sorted_array_subscript_operator_randomized OK +98: test_stream_read_genbank_single_mmap OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +103: TEST SUITE test_simd_vector 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 -103: test_banded_chain_alignment_align_affine_overlap_two_scores OK -103: test_banded_chain_alignment_gaps_linear_global_one_score OK -103: test_banded_chain_alignment_gaps_linear_global_two_score OK -103: test_banded_chain_alignment_gaps_linear_semi_one_score OK -103: test_banded_chain_alignment_gaps_linear_semi_two_score OK -103: test_banded_chain_alignment_gaps_linear_overlap_one_score OK -103: test_banded_chain_alignment_gaps_linear_overlap_two_score OK -103: test_banded_chain_alignment_gaps_affine_global_one_score OK -103: test_banded_chain_alignment_gaps_affine_global_two_scores OK -103: test_banded_chain_alignment_gaps_affine_semi_one_score OK -103: test_banded_chain_alignment_gaps_affine_semi_two_scores OK -103: test_banded_chain_alignment_gaps_affine_overlap_one_score OK -103: test_banded_chain_alignment_gaps_affine_overlap_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_linear_global_one_score OK -103: test_banded_chain_alignment_alignmentgraph_linear_global_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_linear_semi_one_score OK -103: test_banded_chain_alignment_alignmentgraph_linear_semi_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_linear_overlap_one_score OK -103: test_banded_chain_alignment_alignmentgraph_linear_overlap_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_affine_global_one_score OK -103: test_banded_chain_alignment_alignmentgraph_affine_global_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_affine_semi_one_score OK -103: test_banded_chain_alignment_alignmentgraph_affine_semi_two_scores OK -103: test_banded_chain_alignment_alignmentgraph_affine_overlap_one_score OK -103: test_banded_chain_alignment_alignmentgraph_affine_overlap_two_scores OK -103: test_banded_chain_alignment_fragments_linear_global_one_score OK -103: test_banded_chain_alignment_fragments_linear_global_two_scores OK -103: test_banded_chain_alignment_fragments_linear_semi_one_score OK -103: test_banded_chain_alignment_fragments_linear_semi_two_scores OK -103: test_banded_chain_alignment_fragments_linear_overlap_one_score OK -103: test_banded_chain_alignment_fragments_linear_overlap_two_scores OK -103: test_banded_chain_alignment_fragments_affine_global_one_score OK -103: test_banded_chain_alignment_fragments_affine_global_two_scores OK -103: test_banded_chain_alignment_fragments_affine_semi_one_score OK -103: test_banded_chain_alignment_fragments_affine_semi_two_scores OK -103: test_banded_chain_alignment_fragments_affine_overlap_one_score OK -103: test_banded_chain_alignment_fragments_affine_overlap_two_scores OK -103: test_banded_chain_alignment_stl_vector_adaption OK 103: ************************************** -103: Total Tests: 49 +103: Total Tests: 0 103: Skipped: 0 103: Errors: 0 103: ************************************** - 84/414 Test #103: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.19 sec -104: TEST SUITE test_seq_io + 84/407 Test #103: test_test_simd_vector ............................................................. Passed 0.01 sec +test 104 + Start 104: test_test_simd_vector_sse4_host + +104: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_sse4 +104: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd +104: Test timeout computed to be: 10000000 +98: test_stream_read_genbank_single_batch_mmap OK +98: test_seq_io_bam_file_sam_read_sequences OK +98: test_seq_io_bam_file_sam_read_sequences_and_qualities OK +98: test_seq_io_bam_file_sam_write_sequences OK +98: test_seq_io_bam_file_sam_write_sequences_and_qualities OK +102: test_sequence_journaled_sorted_array_fuzzying OK +102: test_sequence_journaled_sorted_array_segments_read_only OK +102: test_sequence_journaled_sorted_array_segments_read_write OK +102: test_sequence_journaled_sorted_array_flatten OK +102: test_sequence_journaled_sorted_array_reset OK +102: test_sequence_journaled_sorted_array_iterator_sum OK +102: test_sequence_journaled_sorted_array_iterator_difference OK +102: test_sequence_journaled_sorted_array_iterator_relations OK +102: test_sequence_journaled_sorted_array_iterator_decrement OK +102: test_sequence_journaled_sorted_array_iterator_set_position OK +102: test_sequence_journaled_sorted_array_iterator_position OK +102: test_sequence_journaled_sorted_array_iterator_rooted_at_begin OK +102: test_sequence_journaled_sorted_array_iterator_rooted_at_end OK +102: test_sequence_journaled_sorted_array_iterator_rooted_go_begin OK +102: test_sequence_journaled_sorted_array_iterator_rooted_go_end OK +102: test_sequence_journaled_sorted_array_iterator_rooted_container OK +102: ************************************** +102: Total Tests: 35 +102: Skipped: 0 +102: Errors: 0 +102: ************************************** +104: TEST SUITE test_simd_vector 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 +104: test_simd_transpose_8x8 OK +104: test_simd_transpose_16x16 OK +104: test_simd_types OK +104: SimdVectorTestCommon_MetaFunctions type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_MetaFunctions type parameter short __vector(8) OK +104: SimdVectorTestCommon_MetaFunctions type parameter int __vector(4) OK +104: SimdVectorTestCommon_MetaFunctions type parameter long __vector(2) OK +104: SimdVectorTestCommon_MetaFunctions type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_MetaFunctions type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_MetaFunctions type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_MetaFunctions type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_SizeOf type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_SizeOf type parameter short __vector(8) OK +104: SimdVectorTestCommon_SizeOf type parameter int __vector(4) OK +104: SimdVectorTestCommon_SizeOf type parameter long __vector(2) OK +104: SimdVectorTestCommon_SizeOf type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_SizeOf type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_SizeOf type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_SizeOf type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_SubscriptType type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_SubscriptType type parameter short __vector(8) OK +104: SimdVectorTestCommon_SubscriptType type parameter int __vector(4) OK +104: SimdVectorTestCommon_SubscriptType type parameter long __vector(2) OK +104: SimdVectorTestCommon_SubscriptType type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_SubscriptType type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_SubscriptType type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_SubscriptType type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_ClearVector type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_ClearVector type parameter short __vector(8) OK +104: SimdVectorTestCommon_ClearVector type parameter int __vector(4) OK +104: SimdVectorTestCommon_ClearVector type parameter long __vector(2) OK +104: SimdVectorTestCommon_ClearVector type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_ClearVector type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_ClearVector type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_ClearVector type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_CreateVector type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_CreateVector type parameter short __vector(8) OK +104: SimdVectorTestCommon_CreateVector type parameter int __vector(4) OK +104: SimdVectorTestCommon_CreateVector type parameter long __vector(2) OK +104: SimdVectorTestCommon_CreateVector type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_CreateVector type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_CreateVector type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_CreateVector type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter short __vector(8) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter int __vector(4) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter long __vector(2) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_FillVectorConstant type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_FillVector type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_FillVector type parameter short __vector(8) OK +104: SimdVectorTestCommon_FillVector type parameter int __vector(4) OK +104: SimdVectorTestCommon_FillVector type parameter long __vector(2) OK +104: SimdVectorTestCommon_FillVector type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_FillVector type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_FillVector type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_FillVector type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_CmpEqual type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_CmpEqual type parameter short __vector(8) OK +104: SimdVectorTestCommon_CmpEqual type parameter int __vector(4) OK +104: SimdVectorTestCommon_CmpEqual type parameter long __vector(2) OK +104: SimdVectorTestCommon_CmpEqual type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_CmpEqual type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_CmpEqual type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_CmpEqual type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_CmpGt type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_CmpGt type parameter short __vector(8) OK +104: SimdVectorTestCommon_CmpGt type parameter int __vector(4) OK +104: SimdVectorTestCommon_CmpGt type parameter long __vector(2) OK +104: SimdVectorTestCommon_CmpGt type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_CmpGt type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_CmpGt type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_CmpGt type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Max type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Max type parameter short __vector(8) OK +104: SimdVectorTestCommon_Max type parameter int __vector(4) OK +104: SimdVectorTestCommon_Max type parameter long __vector(2) OK +104: SimdVectorTestCommon_Max type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Max type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Max type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Max type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Min type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Min type parameter short __vector(8) OK +104: SimdVectorTestCommon_Min type parameter int __vector(4) OK +104: SimdVectorTestCommon_Min type parameter long __vector(2) OK +104: SimdVectorTestCommon_Min type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Min type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Min type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Min type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseOr type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseOr type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseOr type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseOr type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseOr type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseOr type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseOr type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseOr type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAnd type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseNot type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseNot type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseNot type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseNot type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseNot type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseNot type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseNot type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseNot type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Addition type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Addition type parameter short __vector(8) OK +104: SimdVectorTestCommon_Addition type parameter int __vector(4) OK +104: SimdVectorTestCommon_Addition type parameter long __vector(2) OK +104: SimdVectorTestCommon_Addition type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Addition type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Addition type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Addition type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Subtraction type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Subtraction type parameter short __vector(8) OK +104: SimdVectorTestCommon_Subtraction type parameter int __vector(4) OK +104: SimdVectorTestCommon_Subtraction type parameter long __vector(2) OK +104: SimdVectorTestCommon_Subtraction type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Subtraction type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Subtraction type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Subtraction type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Multiplication type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Multiplication type parameter short __vector(8) OK +104: SimdVectorTestCommon_Multiplication type parameter int __vector(4) OK +104: SimdVectorTestCommon_Multiplication type parameter long __vector(2) OK +104: SimdVectorTestCommon_Multiplication type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Multiplication type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Multiplication type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Multiplication type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Division type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Division type parameter short __vector(8) OK +104: SimdVectorTestCommon_Division type parameter int __vector(4) OK +104: SimdVectorTestCommon_Division type parameter long __vector(2) OK +104: SimdVectorTestCommon_Division type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Division type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Division type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Division type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter long __vector(2) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter short __vector(8) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter int __vector(4) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter long __vector(2) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Blend type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Blend type parameter short __vector(8) OK +104: SimdVectorTestCommon_Blend type parameter int __vector(4) OK +104: SimdVectorTestCommon_Blend type parameter long __vector(2) OK +104: SimdVectorTestCommon_Blend type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Blend type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Blend type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Blend type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Storeu type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Storeu type parameter short __vector(8) OK +104: SimdVectorTestCommon_Storeu type parameter int __vector(4) OK +104: SimdVectorTestCommon_Storeu type parameter long __vector(2) OK +104: SimdVectorTestCommon_Storeu type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Storeu type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Storeu type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Storeu type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Load type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Load type parameter short __vector(8) OK +104: SimdVectorTestCommon_Load type parameter int __vector(4) OK +104: SimdVectorTestCommon_Load type parameter long __vector(2) OK +104: SimdVectorTestCommon_Load type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Load type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Load type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Load type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Gather type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Gather type parameter short __vector(8) OK +104: SimdVectorTestCommon_Gather type parameter int __vector(4) OK +104: SimdVectorTestCommon_Gather type parameter long __vector(2) OK +104: SimdVectorTestCommon_Gather type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Gather type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Gather type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Gather type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter short __vector(8) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter int __vector(4) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter long __vector(2) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter short __vector(8) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter int __vector(4) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter long __vector(2) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned long __vector(2) OK +104: SimdVectorTestCommon_Shuffle type parameter signed char __vector(16) OK +104: SimdVectorTestCommon_Shuffle type parameter short __vector(8) OK +104: SimdVectorTestCommon_Shuffle type parameter int __vector(4) OK +104: SimdVectorTestCommon_Shuffle type parameter long __vector(2) OK +104: SimdVectorTestCommon_Shuffle type parameter unsigned char __vector(16) OK +104: SimdVectorTestCommon_Shuffle type parameter unsigned short __vector(8) OK +104: SimdVectorTestCommon_Shuffle type parameter unsigned int __vector(4) OK +104: SimdVectorTestCommon_Shuffle type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_CharArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_CharArray type parameter short __vector(8) OK +104: SimdVectorTestGather_CharArray type parameter int __vector(4) OK +104: SimdVectorTestGather_CharArray type parameter long __vector(2) OK +104: SimdVectorTestGather_CharArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_CharArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_CharArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_CharArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_ShortArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_ShortArray type parameter short __vector(8) OK +104: SimdVectorTestGather_ShortArray type parameter int __vector(4) OK +104: SimdVectorTestGather_ShortArray type parameter long __vector(2) OK +104: SimdVectorTestGather_ShortArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_ShortArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_ShortArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_ShortArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_IntArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_IntArray type parameter short __vector(8) OK +104: SimdVectorTestGather_IntArray type parameter int __vector(4) OK +104: SimdVectorTestGather_IntArray type parameter long __vector(2) OK +104: SimdVectorTestGather_IntArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_IntArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_IntArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_IntArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_LongArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_LongArray type parameter short __vector(8) OK +104: SimdVectorTestGather_LongArray type parameter int __vector(4) OK +104: SimdVectorTestGather_LongArray type parameter long __vector(2) OK +104: SimdVectorTestGather_LongArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_LongArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_LongArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_LongArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_UCharArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_UCharArray type parameter short __vector(8) OK +104: SimdVectorTestGather_UCharArray type parameter int __vector(4) OK +104: SimdVectorTestGather_UCharArray type parameter long __vector(2) OK +104: SimdVectorTestGather_UCharArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_UCharArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_UCharArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_UCharArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_UShortArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_UShortArray type parameter short __vector(8) OK +104: SimdVectorTestGather_UShortArray type parameter int __vector(4) OK +104: SimdVectorTestGather_UShortArray type parameter long __vector(2) OK +104: SimdVectorTestGather_UShortArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_UShortArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_UShortArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_UShortArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_UIntArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_UIntArray type parameter short __vector(8) OK +104: SimdVectorTestGather_UIntArray type parameter int __vector(4) OK +104: SimdVectorTestGather_UIntArray type parameter long __vector(2) OK +104: SimdVectorTestGather_UIntArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_UIntArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_UIntArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_UIntArray type parameter unsigned long __vector(2) OK +104: SimdVectorTestGather_ULongArray type parameter signed char __vector(16) OK +104: SimdVectorTestGather_ULongArray type parameter short __vector(8) OK +104: SimdVectorTestGather_ULongArray type parameter int __vector(4) OK +104: SimdVectorTestGather_ULongArray type parameter long __vector(2) OK +104: SimdVectorTestGather_ULongArray type parameter unsigned char __vector(16) OK +104: SimdVectorTestGather_ULongArray type parameter unsigned short __vector(8) OK +104: SimdVectorTestGather_ULongArray type parameter unsigned int __vector(4) OK +104: SimdVectorTestGather_ULongArray type parameter unsigned long __vector(2) OK +104: ************************************** +104: Total Tests: 299 +104: Skipped: 0 +104: Errors: 0 +104: ************************************** + 85/407 Test #102: test_test_sequence_journaled ...................................................... Passed 0.08 sec + 86/407 Test #104: test_test_simd_vector_sse4_host ................................................... Passed 0.04 sec +61: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +test 105 + Start 105: test_test_simple_intervals_io + +105: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simple_intervals_io +105: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io +105: Test timeout computed to be: 10000000 +test 106 + Start 106: test_test_statistics + +106: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_statistics +106: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics +106: Test timeout computed to be: 10000000 +100: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_LessOperator type parameter seqan::String > > OK +100: StringTestCommon_LessOperator type parameter seqan::String > > OK +100: StringTestCommon_LessOperator type parameter seqan::String > > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter seqan::String > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_LessOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_LessOperator type parameter std::vector > OK +100: StringTestCommon_LessOperator type parameter std::vector > OK +100: StringTestCommon_LessOperator type parameter std::vector > OK +100: StringTestCommon_LessOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_LessOperator type parameter std::deque > OK +100: StringTestCommon_LessOperator type parameter std::deque > OK +100: StringTestCommon_LessOperator type parameter std::deque > OK +100: StringTestCommon_LessOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_LessOperator type parameter std::forward_list > OK +100: StringTestCommon_LessOperator type parameter std::forward_list > OK +100: StringTestCommon_LessOperator type parameter std::forward_list > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +98: test_seq_io_bam_file_bam_read_sequences OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +13: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +13: ************************************** +13: Total Tests: 24 +13: Skipped: 0 +13: Errors: 0 +13: ************************************** +105: TEST SUITE test_simple_intervals_io 105: SEQAN_ENABLE_DEBUG == 1 105: SEQAN_ENABLE_TESTING == 1 105: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 105: SEQAN_ASYNC_IO == 1 -105: test_sequence_adaptions_metafunctions_std_string OK -105: test_sequence_adaptions_iterators_std_string OK -105: test_sequence_adaptions_sequence_interface_std_string OK -105: test_sequence_adaptions_sequence_memory_std_string OK -105: test_sequence_adaptions_metafunctions_std_vector OK -105: test_sequence_adaptions_iterators_std_vector OK -105: test_sequence_adaptions_sequence_interface_std_vector OK -105: test_sequence_adaptions_sequence_memory_std_vector OK -105: test_sequence_adaptions_metafunctions_std_array OK -105: test_sequence_adaptions_iterators_std_array OK -105: test_sequence_adaptions_sequence_interface_std_array OK -105: test_sequence_adaptions_metafunctions_std_list OK -105: test_sequence_adaptions_iterators_std_list OK -105: test_sequence_adaptions_sequence_interface_std_list OK -105: Sequence_Interface OK -105: String_Base OK -105: String_Alloc OK -105: String_Array OK -105: String_Stack OK -105: String_Pointer OK -105: String_CStyle OK -105: String_Packed OK -105: Std_String OK -105: Lexical OK -105: Combinatoric OK -105: Segment OK -105: StringSet_Owner_Default OK -105: StringSet_Concat_Owner_Default OK -105: StringSet_Concat_Owner_ConcatDirect OK -105: StringSet_Id_Dependent_Tight OK -105: StringSet_Id_Dependent_Generous OK -105: StringSetIdHolder_Char_Dependent_Tight OK -105: StringSetIdHolder_Char_Dependent_Generous OK -105: Infix OK -105: Suffix OK -105: ticket317 OK -105: ticket848 OK -105: DEFAULT CONSTRUCTING TestContainer 0x7ffe69d03510 -105: string.data_begin 0x559d1de9dd70 -105: COPY CONSTRUCTING TestContainer 0x7ffe69d03530 -105: other 0x7ffe69d03510 -105: string.data_begin 0x559d1de9ea20 -105: COPY CONSTRUCTING TestContainer 0x559d1de9e2f0 -105: other 0x7ffe69d03530 -105: string.data_begin 0x559d1de9eab0 -105: DECONSTRUCTING TestContainer 0x7ffe69d03530 -105: string.data_begin 0x559d1de9ea20 -105: DECONSTRUCTING TestContainer 0x7ffe69d03510 -105: string.data_begin 0x559d1de9dd70 -105: DECONSTRUCTING TestContainer 0x559d1de9e2f0 -105: string.data_begin 0x559d1de9eab0 -105: test_find_motif_memory_leak_ticket_364 OK -105: ticket901 OK -105: ticket1108 OK -105: String_Packed_Extension OK +105: test_simple_intervals_io_read_records OK +105: test_simple_intervals_io_write_records OK +105: test_simple_intervals_io_smart_file_read OK +105: test_simple_intervals_io_smart_file_write OK 105: ************************************** -105: Total Tests: 41 +105: Total Tests: 4 105: Skipped: 0 105: Errors: 0 105: ************************************** - 85/414 Test #105: test_test_sequence ................................................................ Passed 0.21 sec -106: TEST SUITE tests +106: TEST SUITE test_statistics 106: SEQAN_ENABLE_DEBUG == 1 106: SEQAN_ENABLE_TESTING == 1 106: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 106: SEQAN_ASYNC_IO == 1 -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter seqan::String > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_DefaultConstructible type parameter std::vector, std::allocator > > OK -106: StringTestCommon_DefaultConstructible type parameter std::vector > OK -106: StringTestCommon_DefaultConstructible type parameter std::vector > OK -106: StringTestCommon_DefaultConstructible type parameter std::vector > OK -106: StringTestCommon_DefaultConstructible type parameter std::deque, std::allocator > > OK -106: StringTestCommon_DefaultConstructible type parameter std::deque > OK -106: StringTestCommon_DefaultConstructible type parameter std::deque > OK -106: StringTestCommon_DefaultConstructible type parameter std::deque > OK -106: StringTestCommon_DefaultConstructible type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK -106: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK -106: StringTestCommon_DefaultConstructible type parameter std::forward_list > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_DefaultConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -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 +106: test_statistics_markov_model OK + 87/407 Test #13: test_test_align_parallel_interface_sse4_host ...................................... Passed 1.46 sec + 88/407 Test #105: test_test_simple_intervals_io ..................................................... Passed 0.06 sec +test 107 + Start 107: test_test_store + +107: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_store +107: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store +107: Test timeout computed to be: 10000000 +test 108 + Start 108: test_test_stream + +108: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stream +108: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream +108: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +98: test_seq_io_bam_file_bam_read_sequences_and_qualities OK +78: test_parallel_atomic_or OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: test_statistics_statistics OK +106: ************************************** +106: Total Tests: 2 +106: Skipped: 0 +106: Errors: 0 +106: ************************************** +107: TEST SUITE test_store 107: SEQAN_ENABLE_DEBUG == 1 107: SEQAN_ENABLE_TESTING == 1 107: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 107: SEQAN_ASYNC_IO == 1 -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_CopyConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_DefaultConstructible type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Comparison type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Append type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AppendValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Assign type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_AssignValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Back type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Begin type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_BeginPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Clear type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Concat type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_End type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EndPosition type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Erase type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_EraseBack type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Front type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet > >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValue type parameter seqan::StringSet >, seqan::Owner > > SKIPPED -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_GetValueById type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -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::Packed > >, seqan::Owner > > OK -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::Array<100ul> >, seqan::Owner > > OK -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::Array<1000ul> >, seqan::Owner > > OK -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 -108: TEST SUITE test_sequence_journaled -108: SEQAN_ENABLE_DEBUG == 1 -108: SEQAN_ENABLE_TESTING == 1 -108: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -108: SEQAN_ASYNC_IO == 1 -108: test_sequence_journaled_sorted_array_assign OK -108: test_sequence_journaled_sorted_array_set OK -108: test_sequence_journaled_sorted_array_host OK -108: test_sequence_journaled_sorted_array_clear OK -108: test_sequence_journaled_sorted_array_empty OK -108: test_sequence_journaled_sorted_array_erase_position OK -108: test_sequence_journaled_sorted_array_erase_begin_end OK -108: test_sequence_journaled_sorted_array_insert OK -108: test_sequence_journaled_sorted_array_insert_value OK -108: test_sequence_journaled_sorted_array_assign_value OK -108: test_sequence_journaled_sorted_array_subscript_operator OK -108: test_sequence_journaled_sorted_array_assign_infix OK -108: test_sequence_journaled_sorted_array_length OK -108: test_sequence_journaled_sorted_array_virtual_to_host_position OK -108: test_sequence_journaled_sorted_array_host_to_virtual_position OK -108: test_sequence_journaled_sorted_array_copy_constructor OK -108: test_sequence_journaled_sorted_array_begin_end_iterator OK -108: test_sequence_journaled_sorted_array_begin_end_const_iterator OK -108: test_sequence_journaled_sorted_array_subscript_operator_randomized OK -108: test_sequence_journaled_sorted_array_fuzzying OK -108: test_sequence_journaled_sorted_array_segments_read_only OK -108: test_sequence_journaled_sorted_array_segments_read_write OK -108: test_sequence_journaled_sorted_array_flatten OK -108: test_sequence_journaled_sorted_array_reset OK -108: test_sequence_journaled_sorted_array_iterator_sum OK -108: test_sequence_journaled_sorted_array_iterator_difference OK -108: test_sequence_journaled_sorted_array_iterator_relations OK -108: test_sequence_journaled_sorted_array_iterator_decrement OK -108: test_sequence_journaled_sorted_array_iterator_set_position OK -108: test_sequence_journaled_sorted_array_iterator_position OK -108: test_sequence_journaled_sorted_array_iterator_rooted_at_begin OK -108: test_sequence_journaled_sorted_array_iterator_rooted_at_end OK -108: test_sequence_journaled_sorted_array_iterator_rooted_go_begin OK -108: test_sequence_journaled_sorted_array_iterator_rooted_go_end OK -108: test_sequence_journaled_sorted_array_iterator_rooted_container OK -108: ************************************** -108: Total Tests: 35 -108: Skipped: 0 -108: Errors: 0 -108: ************************************** - 86/414 Test #108: test_test_sequence_journaled ...................................................... Passed 0.20 sec -109: TEST SUITE test_simd_vector +107: test_store_io_read_ucsc_known_genes OK +107: test_store_io_read_ucsc_known_genes_and_isoforms OK +107: test_store_io_write_ucsc_known_genes OK +107: test_store_io_read_gff OK +107: test_store_io_write_gff OK +107: test_store_io_read_gtf OK +107: test_store_io_write_gtf OK +107: test_store_io_readwrite_amos OK +107: test_store_io_read_amos OK + 89/407 Test #106: test_test_statistics .............................................................. Passed 0.09 sec +test 109 + Start 109: test_test_find_swift + +109: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_swift +109: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local +109: Test timeout computed to be: 10000000 +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +109: TEST SUITE test_find_swift 109: SEQAN_ENABLE_DEBUG == 1 109: SEQAN_ENABLE_TESTING == 1 109: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 109: SEQAN_ASYNC_IO == 1 +109: test_find_swift OK +109: test_longest_epsMatch OK +109: test_split_xDrop_align OK 109: ************************************** -109: Total Tests: 0 +109: Total Tests: 3 109: Skipped: 0 109: Errors: 0 109: ************************************** - 87/414 Test #109: test_test_simd_vector ............................................................. Passed 0.20 sec -110: TEST SUITE test_simd_vector + 90/407 Test #109: test_test_find_swift .............................................................. Passed 0.02 sec +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +test 110 + Start 110: test_test_tabix_io + +110: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_tabix_io +110: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io +110: Test timeout computed to be: 10000000 +108: TEST SUITE tests +108: SEQAN_ENABLE_DEBUG == 1 +108: SEQAN_ENABLE_TESTING == 1 +108: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +108: SEQAN_ASYNC_IO == 1 +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +108: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +108: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned short, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned int, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long long, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK +108: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK +108: AppendSignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK +108: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, float, void> OK +108: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, double, void> OK +108: TokenizationTest_read type parameter seqan::String > OK +108: TokenizationTest_read type parameter std::basic_ifstream > OK +108: TokenizationTest_read type parameter std::basic_fstream > OK +108: TokenizationTest_read type parameter seqan::Iter >, seqan::StreamIterator > > OK +108: TokenizationTest_ReadIgnoring type parameter seqan::String > OK +108: TokenizationTest_ReadIgnoring type parameter std::basic_ifstream > OK +108: TokenizationTest_ReadIgnoring type parameter std::basic_fstream > OK +108: TokenizationTest_ReadIgnoring type parameter seqan::Iter >, seqan::StreamIterator > > OK +108: TokenizationTest_ReadUntil_ReadLine type parameter seqan::String > OK +108: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_ifstream > OK +108: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_fstream > OK +108: TokenizationTest_ReadUntil_ReadLine type parameter seqan::Iter >, seqan::StreamIterator > > OK +108: TokenizationTest_SkipUntil type parameter seqan::String > OK +108: TokenizationTest_SkipUntil type parameter std::basic_ifstream > OK +108: TokenizationTest_SkipUntil type parameter std::basic_fstream > OK +108: TokenizationTest_SkipUntil type parameter seqan::Iter >, seqan::StreamIterator > > OK +108: TokenizationTest_SkipLine type parameter seqan::String > OK +108: TokenizationTest_SkipLine type parameter std::basic_ifstream > OK +108: TokenizationTest_SkipLine type parameter std::basic_fstream > OK +108: TokenizationTest_SkipLine type parameter seqan::Iter >, seqan::StreamIterator > > OK +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +110: TEST SUITE test_tabix_io 110: SEQAN_ENABLE_DEBUG == 1 110: SEQAN_ENABLE_TESTING == 1 110: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 110: SEQAN_ASYNC_IO == 1 -110: test_simd_transpose_8x8 OK -110: test_simd_transpose_16x16 OK -110: test_simd_types OK -110: SimdVectorTestCommon_MetaFunctions type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_MetaFunctions type parameter short __vector(8) OK -110: SimdVectorTestCommon_MetaFunctions type parameter int __vector(4) OK -110: SimdVectorTestCommon_MetaFunctions type parameter long __vector(2) OK -110: SimdVectorTestCommon_MetaFunctions type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_MetaFunctions type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_MetaFunctions type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_MetaFunctions type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_SizeOf type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_SizeOf type parameter short __vector(8) OK -110: SimdVectorTestCommon_SizeOf type parameter int __vector(4) OK -110: SimdVectorTestCommon_SizeOf type parameter long __vector(2) OK -110: SimdVectorTestCommon_SizeOf type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_SizeOf type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_SizeOf type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_SizeOf type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_SubscriptType type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_SubscriptType type parameter short __vector(8) OK -110: SimdVectorTestCommon_SubscriptType type parameter int __vector(4) OK -110: SimdVectorTestCommon_SubscriptType type parameter long __vector(2) OK -110: SimdVectorTestCommon_SubscriptType type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_SubscriptType type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_SubscriptType type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_SubscriptType type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_ClearVector type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_ClearVector type parameter short __vector(8) OK -110: SimdVectorTestCommon_ClearVector type parameter int __vector(4) OK -110: SimdVectorTestCommon_ClearVector type parameter long __vector(2) OK -110: SimdVectorTestCommon_ClearVector type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_ClearVector type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_ClearVector type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_ClearVector type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_CreateVector type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_CreateVector type parameter short __vector(8) OK -110: SimdVectorTestCommon_CreateVector type parameter int __vector(4) OK -110: SimdVectorTestCommon_CreateVector type parameter long __vector(2) OK -110: SimdVectorTestCommon_CreateVector type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_CreateVector type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_CreateVector type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_CreateVector type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter short __vector(8) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter int __vector(4) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter long __vector(2) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_FillVectorConstant type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_FillVector type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_FillVector type parameter short __vector(8) OK -110: SimdVectorTestCommon_FillVector type parameter int __vector(4) OK -110: SimdVectorTestCommon_FillVector type parameter long __vector(2) OK -110: SimdVectorTestCommon_FillVector type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_FillVector type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_FillVector type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_FillVector type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_CmpEqual type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_CmpEqual type parameter short __vector(8) OK -110: SimdVectorTestCommon_CmpEqual type parameter int __vector(4) OK -110: SimdVectorTestCommon_CmpEqual type parameter long __vector(2) OK -110: SimdVectorTestCommon_CmpEqual type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_CmpEqual type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_CmpEqual type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_CmpEqual type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_CmpGt type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_CmpGt type parameter short __vector(8) OK -110: SimdVectorTestCommon_CmpGt type parameter int __vector(4) OK -110: SimdVectorTestCommon_CmpGt type parameter long __vector(2) OK -110: SimdVectorTestCommon_CmpGt type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_CmpGt type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_CmpGt type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_CmpGt type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Max type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Max type parameter short __vector(8) OK -110: SimdVectorTestCommon_Max type parameter int __vector(4) OK -110: SimdVectorTestCommon_Max type parameter long __vector(2) OK -110: SimdVectorTestCommon_Max type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Max type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Max type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Max type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Min type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Min type parameter short __vector(8) OK -110: SimdVectorTestCommon_Min type parameter int __vector(4) OK -110: SimdVectorTestCommon_Min type parameter long __vector(2) OK -110: SimdVectorTestCommon_Min type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Min type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Min type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Min type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseOr type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseOr type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseOr type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseOr type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseOr type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseOr type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseOr type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseOr type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAnd type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseNot type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseNot type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseNot type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseNot type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseNot type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseNot type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseNot type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseNot type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Addition type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Addition type parameter short __vector(8) OK -110: SimdVectorTestCommon_Addition type parameter int __vector(4) OK -110: SimdVectorTestCommon_Addition type parameter long __vector(2) OK -110: SimdVectorTestCommon_Addition type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Addition type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Addition type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Addition type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Subtraction type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Subtraction type parameter short __vector(8) OK -110: SimdVectorTestCommon_Subtraction type parameter int __vector(4) OK -110: SimdVectorTestCommon_Subtraction type parameter long __vector(2) OK -110: SimdVectorTestCommon_Subtraction type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Subtraction type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Subtraction type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Subtraction type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Multiplication type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Multiplication type parameter short __vector(8) OK -110: SimdVectorTestCommon_Multiplication type parameter int __vector(4) OK -110: SimdVectorTestCommon_Multiplication type parameter long __vector(2) OK -110: SimdVectorTestCommon_Multiplication type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Multiplication type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Multiplication type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Multiplication type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Division type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Division type parameter short __vector(8) OK -110: SimdVectorTestCommon_Division type parameter int __vector(4) OK -110: SimdVectorTestCommon_Division type parameter long __vector(2) OK -110: SimdVectorTestCommon_Division type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Division type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Division type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Division type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter long __vector(2) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter short __vector(8) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter int __vector(4) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter long __vector(2) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Blend type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Blend type parameter short __vector(8) OK -110: SimdVectorTestCommon_Blend type parameter int __vector(4) OK -110: SimdVectorTestCommon_Blend type parameter long __vector(2) OK -110: SimdVectorTestCommon_Blend type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Blend type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Blend type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Blend type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Storeu type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Storeu type parameter short __vector(8) OK -110: SimdVectorTestCommon_Storeu type parameter int __vector(4) OK -110: SimdVectorTestCommon_Storeu type parameter long __vector(2) OK -110: SimdVectorTestCommon_Storeu type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Storeu type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Storeu type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Storeu type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Load type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Load type parameter short __vector(8) OK -110: SimdVectorTestCommon_Load type parameter int __vector(4) OK -110: SimdVectorTestCommon_Load type parameter long __vector(2) OK -110: SimdVectorTestCommon_Load type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Load type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Load type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Load type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Gather type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Gather type parameter short __vector(8) OK -110: SimdVectorTestCommon_Gather type parameter int __vector(4) OK -110: SimdVectorTestCommon_Gather type parameter long __vector(2) OK -110: SimdVectorTestCommon_Gather type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Gather type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Gather type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Gather type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter short __vector(8) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter int __vector(4) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter long __vector(2) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter short __vector(8) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter int __vector(4) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter long __vector(2) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned long __vector(2) OK -110: SimdVectorTestCommon_Shuffle type parameter signed char __vector(16) OK -110: SimdVectorTestCommon_Shuffle type parameter short __vector(8) OK -110: SimdVectorTestCommon_Shuffle type parameter int __vector(4) OK -110: SimdVectorTestCommon_Shuffle type parameter long __vector(2) OK -110: SimdVectorTestCommon_Shuffle type parameter unsigned char __vector(16) OK -110: SimdVectorTestCommon_Shuffle type parameter unsigned short __vector(8) OK -110: SimdVectorTestCommon_Shuffle type parameter unsigned int __vector(4) OK -110: SimdVectorTestCommon_Shuffle type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_CharArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_CharArray type parameter short __vector(8) OK -110: SimdVectorTestGather_CharArray type parameter int __vector(4) OK -110: SimdVectorTestGather_CharArray type parameter long __vector(2) OK -110: SimdVectorTestGather_CharArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_CharArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_CharArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_CharArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_ShortArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_ShortArray type parameter short __vector(8) OK -110: SimdVectorTestGather_ShortArray type parameter int __vector(4) OK -110: SimdVectorTestGather_ShortArray type parameter long __vector(2) OK -110: SimdVectorTestGather_ShortArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_ShortArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_ShortArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_ShortArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_IntArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_IntArray type parameter short __vector(8) OK -110: SimdVectorTestGather_IntArray type parameter int __vector(4) OK -110: SimdVectorTestGather_IntArray type parameter long __vector(2) OK -110: SimdVectorTestGather_IntArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_IntArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_IntArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_IntArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_LongArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_LongArray type parameter short __vector(8) OK -110: SimdVectorTestGather_LongArray type parameter int __vector(4) OK -110: SimdVectorTestGather_LongArray type parameter long __vector(2) OK -110: SimdVectorTestGather_LongArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_LongArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_LongArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_LongArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_UCharArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_UCharArray type parameter short __vector(8) OK -110: SimdVectorTestGather_UCharArray type parameter int __vector(4) OK -110: SimdVectorTestGather_UCharArray type parameter long __vector(2) OK -110: SimdVectorTestGather_UCharArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_UCharArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_UCharArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_UCharArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_UShortArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_UShortArray type parameter short __vector(8) OK -110: SimdVectorTestGather_UShortArray type parameter int __vector(4) OK -110: SimdVectorTestGather_UShortArray type parameter long __vector(2) OK -110: SimdVectorTestGather_UShortArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_UShortArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_UShortArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_UShortArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_UIntArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_UIntArray type parameter short __vector(8) OK -110: SimdVectorTestGather_UIntArray type parameter int __vector(4) OK -110: SimdVectorTestGather_UIntArray type parameter long __vector(2) OK -110: SimdVectorTestGather_UIntArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_UIntArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_UIntArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_UIntArray type parameter unsigned long __vector(2) OK -110: SimdVectorTestGather_ULongArray type parameter signed char __vector(16) OK -110: SimdVectorTestGather_ULongArray type parameter short __vector(8) OK -110: SimdVectorTestGather_ULongArray type parameter int __vector(4) OK -110: SimdVectorTestGather_ULongArray type parameter long __vector(2) OK -110: SimdVectorTestGather_ULongArray type parameter unsigned char __vector(16) OK -110: SimdVectorTestGather_ULongArray type parameter unsigned short __vector(8) OK -110: SimdVectorTestGather_ULongArray type parameter unsigned int __vector(4) OK -110: SimdVectorTestGather_ULongArray type parameter unsigned long __vector(2) OK -110: ************************************** -110: Total Tests: 299 -110: Skipped: 0 -110: Errors: 0 -110: ************************************** - 88/414 Test #110: test_test_simd_vector_sse4_host ................................................... Passed 0.20 sec -111: TEST SUITE test_simd_vector +108: FileStreamTest_ReadSimpleUsage type parameter seqan::Async OK +108: FileStreamTest_ReadSimpleUsage type parameter seqan::MMap >, unsigned long> > OK +108: FileStreamTest_ReadComplexUsage type parameter seqan::Async OK +108: FileStreamTest_ReadComplexUsage type parameter seqan::MMap >, unsigned long> > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +108: FileStreamTest_WriteSimpleUsage type parameter seqan::Async OK +108: FileStreamTest_WriteSimpleUsage type parameter seqan::MMap >, unsigned long> > OK +108: FileStreamTest_WriteComplexUsage type parameter seqan::Async OK +108: FileStreamTest_WriteComplexUsage type parameter seqan::MMap >, unsigned long> > OK +98: test_seq_io_bam_file_bam_write_sequences OK +108: FileStreamTest_Eof type parameter seqan::Async OK +108: FileStreamTest_Eof type parameter seqan::MMap >, unsigned long> > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +108: FileStreamTest_Seek type parameter seqan::Async OK +108: FileStreamTest_Seek type parameter seqan::MMap >, unsigned long> > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +108: FileStreamTest_Tell type parameter seqan::Async OK +108: FileStreamTest_Tell type parameter seqan::MMap >, unsigned long> > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_LessEqualOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_LessEqualOperator type parameter std::vector > OK +100: StringTestCommon_LessEqualOperator type parameter std::vector > OK +100: StringTestCommon_LessEqualOperator type parameter std::vector > OK +100: StringTestCommon_LessEqualOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_LessEqualOperator type parameter std::deque > OK +100: StringTestCommon_LessEqualOperator type parameter std::deque > OK +100: StringTestCommon_LessEqualOperator type parameter std::deque > OK +100: StringTestCommon_LessEqualOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +99: ticket1108 OK +99: String_Packed_Extension OK +99: ************************************** +99: Total Tests: 41 +99: Skipped: 0 +99: Errors: 0 +99: ************************************** + 91/407 Test #99: test_test_sequence ................................................................ Passed 0.47 sec +98: test_seq_io_bam_file_bam_write_sequences_and_qualities OK +test 111 + Start 111: test_translation + +111: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_translation +111: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation +111: Test timeout computed to be: 10000000 +98: ************************************** +98: Total Tests: 44 +98: Skipped: 0 +98: Errors: 0 +98: ************************************** +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +111: TEST SUITE test_translation 111: SEQAN_ENABLE_DEBUG == 1 111: SEQAN_ENABLE_TESTING == 1 111: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 111: SEQAN_ASYNC_IO == 1 -111: test_simd_transpose_8x8 OK -111: test_simd_transpose_16x16 OK -111: test_simd_types OK -111: test_simd_transpose_32x32 OK -111: SimdVectorTestCommon_MetaFunctions type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_MetaFunctions type parameter short __vector(8) OK -111: SimdVectorTestCommon_MetaFunctions type parameter int __vector(4) OK -111: SimdVectorTestCommon_MetaFunctions type parameter long __vector(2) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_MetaFunctions type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_MetaFunctions type parameter short __vector(16) OK -111: SimdVectorTestCommon_MetaFunctions type parameter int __vector(8) OK -111: SimdVectorTestCommon_MetaFunctions type parameter long __vector(4) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_MetaFunctions type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_SizeOf type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_SizeOf type parameter short __vector(8) OK -111: SimdVectorTestCommon_SizeOf type parameter int __vector(4) OK -111: SimdVectorTestCommon_SizeOf type parameter long __vector(2) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_SizeOf type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_SizeOf type parameter short __vector(16) OK -111: SimdVectorTestCommon_SizeOf type parameter int __vector(8) OK -111: SimdVectorTestCommon_SizeOf type parameter long __vector(4) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_SizeOf type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_SubscriptType type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_SubscriptType type parameter short __vector(8) OK -111: SimdVectorTestCommon_SubscriptType type parameter int __vector(4) OK -111: SimdVectorTestCommon_SubscriptType type parameter long __vector(2) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_SubscriptType type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_SubscriptType type parameter short __vector(16) OK -111: SimdVectorTestCommon_SubscriptType type parameter int __vector(8) OK -111: SimdVectorTestCommon_SubscriptType type parameter long __vector(4) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_SubscriptType type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_ClearVector type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_ClearVector type parameter short __vector(8) OK -111: SimdVectorTestCommon_ClearVector type parameter int __vector(4) OK -111: SimdVectorTestCommon_ClearVector type parameter long __vector(2) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_ClearVector type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_ClearVector type parameter short __vector(16) OK -111: SimdVectorTestCommon_ClearVector type parameter int __vector(8) OK -111: SimdVectorTestCommon_ClearVector type parameter long __vector(4) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_ClearVector type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_CreateVector type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_CreateVector type parameter short __vector(8) OK -111: SimdVectorTestCommon_CreateVector type parameter int __vector(4) OK -111: SimdVectorTestCommon_CreateVector type parameter long __vector(2) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_CreateVector type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_CreateVector type parameter short __vector(16) OK -111: SimdVectorTestCommon_CreateVector type parameter int __vector(8) OK -111: SimdVectorTestCommon_CreateVector type parameter long __vector(4) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_CreateVector type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter short __vector(8) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter int __vector(4) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter long __vector(2) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter short __vector(16) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter int __vector(8) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter long __vector(4) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_FillVectorConstant type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_FillVector type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_FillVector type parameter short __vector(8) OK -111: SimdVectorTestCommon_FillVector type parameter int __vector(4) OK -111: SimdVectorTestCommon_FillVector type parameter long __vector(2) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_FillVector type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_FillVector type parameter short __vector(16) OK -111: SimdVectorTestCommon_FillVector type parameter int __vector(8) OK -111: SimdVectorTestCommon_FillVector type parameter long __vector(4) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_FillVector type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_CmpEqual type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_CmpEqual type parameter short __vector(8) OK -111: SimdVectorTestCommon_CmpEqual type parameter int __vector(4) OK -111: SimdVectorTestCommon_CmpEqual type parameter long __vector(2) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_CmpEqual type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_CmpEqual type parameter short __vector(16) OK -111: SimdVectorTestCommon_CmpEqual type parameter int __vector(8) OK -111: SimdVectorTestCommon_CmpEqual type parameter long __vector(4) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_CmpEqual type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_CmpGt type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_CmpGt type parameter short __vector(8) OK -111: SimdVectorTestCommon_CmpGt type parameter int __vector(4) OK -111: SimdVectorTestCommon_CmpGt type parameter long __vector(2) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_CmpGt type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_CmpGt type parameter short __vector(16) OK -111: SimdVectorTestCommon_CmpGt type parameter int __vector(8) OK -111: SimdVectorTestCommon_CmpGt type parameter long __vector(4) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_CmpGt type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Max type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Max type parameter short __vector(8) OK -111: SimdVectorTestCommon_Max type parameter int __vector(4) OK -111: SimdVectorTestCommon_Max type parameter long __vector(2) OK -111: SimdVectorTestCommon_Max type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Max type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Max type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Max type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Max type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Max type parameter short __vector(16) OK -111: SimdVectorTestCommon_Max type parameter int __vector(8) OK -111: SimdVectorTestCommon_Max type parameter long __vector(4) OK -111: SimdVectorTestCommon_Max type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Max type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Max type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Max type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Min type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Min type parameter short __vector(8) OK -111: SimdVectorTestCommon_Min type parameter int __vector(4) OK -111: SimdVectorTestCommon_Min type parameter long __vector(2) OK -111: SimdVectorTestCommon_Min type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Min type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Min type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Min type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Min type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Min type parameter short __vector(16) OK -111: SimdVectorTestCommon_Min type parameter int __vector(8) OK -111: SimdVectorTestCommon_Min type parameter long __vector(4) OK -111: SimdVectorTestCommon_Min type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Min type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Min type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Min type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseOr type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseOr type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseOr type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseOr type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseOr type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseOr type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseOr type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseOr type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseOr type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseOrAssign type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAnd type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndAssign type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseNot type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseNot type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseNot type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseNot type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseNot type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseNot type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseNot type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseNot type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseNot type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Addition type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Addition type parameter short __vector(8) OK -111: SimdVectorTestCommon_Addition type parameter int __vector(4) OK -111: SimdVectorTestCommon_Addition type parameter long __vector(2) OK -111: SimdVectorTestCommon_Addition type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Addition type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Addition type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Addition type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Addition type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Addition type parameter short __vector(16) OK -111: SimdVectorTestCommon_Addition type parameter int __vector(8) OK -111: SimdVectorTestCommon_Addition type parameter long __vector(4) OK -111: SimdVectorTestCommon_Addition type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Addition type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Addition type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Addition type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Subtraction type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Subtraction type parameter short __vector(8) OK -111: SimdVectorTestCommon_Subtraction type parameter int __vector(4) OK -111: SimdVectorTestCommon_Subtraction type parameter long __vector(2) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Subtraction type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Subtraction type parameter short __vector(16) OK -111: SimdVectorTestCommon_Subtraction type parameter int __vector(8) OK -111: SimdVectorTestCommon_Subtraction type parameter long __vector(4) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Subtraction type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Multiplication type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Multiplication type parameter short __vector(8) OK -111: SimdVectorTestCommon_Multiplication type parameter int __vector(4) OK -111: SimdVectorTestCommon_Multiplication type parameter long __vector(2) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Multiplication type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Multiplication type parameter short __vector(16) OK -111: SimdVectorTestCommon_Multiplication type parameter int __vector(8) OK -111: SimdVectorTestCommon_Multiplication type parameter long __vector(4) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Multiplication type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Division type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Division type parameter short __vector(8) OK -111: SimdVectorTestCommon_Division type parameter int __vector(4) OK -111: SimdVectorTestCommon_Division type parameter long __vector(2) OK -111: SimdVectorTestCommon_Division type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Division type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Division type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Division type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Division type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Division type parameter short __vector(16) OK -111: SimdVectorTestCommon_Division type parameter int __vector(8) OK -111: SimdVectorTestCommon_Division type parameter long __vector(4) OK -111: SimdVectorTestCommon_Division type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Division type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Division type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Division type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter long __vector(4) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_BitwiseAndNot type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter short __vector(8) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter int __vector(4) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter long __vector(2) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter short __vector(16) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter int __vector(8) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter long __vector(4) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_ShiftRightLogical type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Blend type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Blend type parameter short __vector(8) OK -111: SimdVectorTestCommon_Blend type parameter int __vector(4) OK -111: SimdVectorTestCommon_Blend type parameter long __vector(2) OK -111: SimdVectorTestCommon_Blend type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Blend type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Blend type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Blend type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Blend type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Blend type parameter short __vector(16) OK -111: SimdVectorTestCommon_Blend type parameter int __vector(8) OK -111: SimdVectorTestCommon_Blend type parameter long __vector(4) OK -111: SimdVectorTestCommon_Blend type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Blend type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Blend type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Blend type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Storeu type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Storeu type parameter short __vector(8) OK -111: SimdVectorTestCommon_Storeu type parameter int __vector(4) OK -111: SimdVectorTestCommon_Storeu type parameter long __vector(2) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Storeu type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Storeu type parameter short __vector(16) OK -111: SimdVectorTestCommon_Storeu type parameter int __vector(8) OK -111: SimdVectorTestCommon_Storeu type parameter long __vector(4) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Storeu type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Load type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Load type parameter short __vector(8) OK -111: SimdVectorTestCommon_Load type parameter int __vector(4) OK -111: SimdVectorTestCommon_Load type parameter long __vector(2) OK -111: SimdVectorTestCommon_Load type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Load type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Load type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Load type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Load type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Load type parameter short __vector(16) OK -111: SimdVectorTestCommon_Load type parameter int __vector(8) OK -111: SimdVectorTestCommon_Load type parameter long __vector(4) OK -111: SimdVectorTestCommon_Load type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Load type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Load type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Load type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Gather type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Gather type parameter short __vector(8) OK -111: SimdVectorTestCommon_Gather type parameter int __vector(4) OK -111: SimdVectorTestCommon_Gather type parameter long __vector(2) OK -111: SimdVectorTestCommon_Gather type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Gather type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Gather type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Gather type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Gather type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Gather type parameter short __vector(16) OK -111: SimdVectorTestCommon_Gather type parameter int __vector(8) OK -111: SimdVectorTestCommon_Gather type parameter long __vector(4) OK -111: SimdVectorTestCommon_Gather type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Gather type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Gather type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Gather type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter short __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter int __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter long __vector(2) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter short __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter int __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter long __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant1 type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter short __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter int __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter long __vector(2) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter short __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter int __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter long __vector(4) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_ShuffleConstant2 type parameter unsigned long __vector(4) OK -111: SimdVectorTestCommon_Shuffle type parameter signed char __vector(16) OK -111: SimdVectorTestCommon_Shuffle type parameter short __vector(8) OK -111: SimdVectorTestCommon_Shuffle type parameter int __vector(4) OK -111: SimdVectorTestCommon_Shuffle type parameter long __vector(2) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned char __vector(16) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned short __vector(8) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned int __vector(4) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned long __vector(2) OK -111: SimdVectorTestCommon_Shuffle type parameter signed char __vector(32) OK -111: SimdVectorTestCommon_Shuffle type parameter short __vector(16) OK -111: SimdVectorTestCommon_Shuffle type parameter int __vector(8) OK -111: SimdVectorTestCommon_Shuffle type parameter long __vector(4) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned char __vector(32) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned short __vector(16) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned int __vector(8) OK -111: SimdVectorTestCommon_Shuffle type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_CharArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_CharArray type parameter short __vector(8) OK -111: SimdVectorTestGather_CharArray type parameter int __vector(4) OK -111: SimdVectorTestGather_CharArray type parameter long __vector(2) OK -111: SimdVectorTestGather_CharArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_CharArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_CharArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_CharArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_CharArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_CharArray type parameter short __vector(16) OK -111: SimdVectorTestGather_CharArray type parameter int __vector(8) OK -111: SimdVectorTestGather_CharArray type parameter long __vector(4) OK -111: SimdVectorTestGather_CharArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_CharArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_CharArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_CharArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_ShortArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_ShortArray type parameter short __vector(8) OK -111: SimdVectorTestGather_ShortArray type parameter int __vector(4) OK -111: SimdVectorTestGather_ShortArray type parameter long __vector(2) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_ShortArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_ShortArray type parameter short __vector(16) OK -111: SimdVectorTestGather_ShortArray type parameter int __vector(8) OK -111: SimdVectorTestGather_ShortArray type parameter long __vector(4) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_ShortArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_IntArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_IntArray type parameter short __vector(8) OK -111: SimdVectorTestGather_IntArray type parameter int __vector(4) OK -111: SimdVectorTestGather_IntArray type parameter long __vector(2) OK -111: SimdVectorTestGather_IntArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_IntArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_IntArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_IntArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_IntArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_IntArray type parameter short __vector(16) OK -111: SimdVectorTestGather_IntArray type parameter int __vector(8) OK -111: SimdVectorTestGather_IntArray type parameter long __vector(4) OK -111: SimdVectorTestGather_IntArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_IntArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_IntArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_IntArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_LongArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_LongArray type parameter short __vector(8) OK -111: SimdVectorTestGather_LongArray type parameter int __vector(4) OK -111: SimdVectorTestGather_LongArray type parameter long __vector(2) OK -111: SimdVectorTestGather_LongArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_LongArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_LongArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_LongArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_LongArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_LongArray type parameter short __vector(16) OK -111: SimdVectorTestGather_LongArray type parameter int __vector(8) OK -111: SimdVectorTestGather_LongArray type parameter long __vector(4) OK -111: SimdVectorTestGather_LongArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_LongArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_LongArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_LongArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_UCharArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_UCharArray type parameter short __vector(8) OK -111: SimdVectorTestGather_UCharArray type parameter int __vector(4) OK -111: SimdVectorTestGather_UCharArray type parameter long __vector(2) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_UCharArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_UCharArray type parameter short __vector(16) OK -111: SimdVectorTestGather_UCharArray type parameter int __vector(8) OK -111: SimdVectorTestGather_UCharArray type parameter long __vector(4) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_UCharArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_UShortArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_UShortArray type parameter short __vector(8) OK -111: SimdVectorTestGather_UShortArray type parameter int __vector(4) OK -111: SimdVectorTestGather_UShortArray type parameter long __vector(2) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_UShortArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_UShortArray type parameter short __vector(16) OK -111: SimdVectorTestGather_UShortArray type parameter int __vector(8) OK -111: SimdVectorTestGather_UShortArray type parameter long __vector(4) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_UShortArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_UIntArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_UIntArray type parameter short __vector(8) OK -111: SimdVectorTestGather_UIntArray type parameter int __vector(4) OK -111: SimdVectorTestGather_UIntArray type parameter long __vector(2) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_UIntArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_UIntArray type parameter short __vector(16) OK -111: SimdVectorTestGather_UIntArray type parameter int __vector(8) OK -111: SimdVectorTestGather_UIntArray type parameter long __vector(4) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_UIntArray type parameter unsigned long __vector(4) OK -111: SimdVectorTestGather_ULongArray type parameter signed char __vector(16) OK -111: SimdVectorTestGather_ULongArray type parameter short __vector(8) OK -111: SimdVectorTestGather_ULongArray type parameter int __vector(4) OK -111: SimdVectorTestGather_ULongArray type parameter long __vector(2) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned char __vector(16) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned short __vector(8) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned int __vector(4) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned long __vector(2) OK -111: SimdVectorTestGather_ULongArray type parameter signed char __vector(32) OK -111: SimdVectorTestGather_ULongArray type parameter short __vector(16) OK -111: SimdVectorTestGather_ULongArray type parameter int __vector(8) OK -111: SimdVectorTestGather_ULongArray type parameter long __vector(4) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned char __vector(32) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned short __vector(16) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned int __vector(8) OK -111: SimdVectorTestGather_ULongArray type parameter unsigned long __vector(4) OK -111: ************************************** -111: Total Tests: 596 -111: Skipped: 0 -111: Errors: 0 -111: ************************************** - 89/414 Test #111: test_test_simd_vector_avx2_host ................................................... Passed 0.19 sec -112: TEST SUITE test_simple_intervals_io +111: test_translation_onestring_singleframe_allcodes OK + 92/407 Test #98: test_test_seq_io .................................................................. Passed 0.52 sec +111: test_translation_onestring_singleframe_allcodes_runtime OK +111: test_translation_onestring_multiframe_serial OK +111: test_translation_onestring_multiframe_concatdirect_serial OK +111: test_translation_stringset_multiframe_serial OK +111: test_translation_stringset_multiframe_concatdirect_serial OK +test 112 + Start 112: test_ucsc_io + +112: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_ucsc_io +112: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io +112: Test timeout computed to be: 10000000 +110: test_tabix_io_read_indexed_vcf OK +110: ************************************** +110: Total Tests: 1 +110: Skipped: 0 +110: Errors: 0 +110: ************************************** +112: TEST SUITE test_ucsc_io 112: SEQAN_ENABLE_DEBUG == 1 112: SEQAN_ENABLE_TESTING == 1 112: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 112: SEQAN_ASYNC_IO == 1 -112: test_simple_intervals_io_read_records OK -112: test_simple_intervals_io_write_records OK -112: test_simple_intervals_io_smart_file_read OK -112: test_simple_intervals_io_smart_file_write OK + 93/407 Test #110: test_test_tabix_io ................................................................ Passed 0.16 sec +test 113 + Start 113: test_test_vcf_io + +113: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_vcf_io +113: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io +113: Test timeout computed to be: 10000000 +100: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +112: test_ucsc_io_read_record_ucsc_known_genes OK +112: test_ucsc_io_read_record_ucsc_known_isoforms OK +112: test_ucsc_io_write_record_ucsc_known_genes OK +112: test_ucsc_io_write_record_ucsc_known_isoforms OK +112: test_ucsc_io_ucsc_file_in_read_record_ucsc_known_genes OK +112: test_ucsc_io_ucsc_file_in_read_record_ucsc_known_isoforms OK +112: test_ucsc_io_ucsc_file_out_write_record_ucsc_known_genes OK +112: test_ucsc_io_ucsc_file_out_write_record_ucsc_known_isoforms OK 112: ************************************** -112: Total Tests: 4 +112: Total Tests: 8 112: Skipped: 0 112: Errors: 0 112: ************************************** + 94/407 Test #112: test_ucsc_io ...................................................................... Passed 0.05 sec +83: test_realign_simple_gaps OK +test 114 + Start 114: test_demo_dox_align_align + +114: 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" +114: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +114: Test timeout computed to be: 10000000 +100: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +113: TEST SUITE test_vcf_io +113: SEQAN_ENABLE_DEBUG == 1 +113: SEQAN_ENABLE_TESTING == 1 +113: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +113: SEQAN_ASYNC_IO == 1 +113: test_vcf_io_read_vcf_header OK +113: test_vcf_io_read_vcf_record OK +113: test_vcf_io_vcf_file_read_record OK +113: test_vcf_io_write_vcf_header OK +113: test_vcf_io_write_vcf_record OK +113: test_vcf_io_vcf_file_write_record OK +113: test_vcf_io_isOpen_fileIn OK +113: test_vcf_io_isOpen_fileOut OK +113: ************************************** +113: Total Tests: 8 +113: Skipped: 0 +113: Errors: 0 +113: ************************************** +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK + 95/407 Test #113: test_test_vcf_io .................................................................. Passed 0.05 sec +test 115 + Start 115: test_demo_dox_align_compute_alignment_stats + +115: 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" +115: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +115: Test timeout computed to be: 10000000 +100: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_GreaterOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_GreaterOperator type parameter std::vector > OK +100: StringTestCommon_GreaterOperator type parameter std::vector > OK +100: StringTestCommon_GreaterOperator type parameter std::vector > OK +100: StringTestCommon_GreaterOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_GreaterOperator type parameter std::deque > OK +100: StringTestCommon_GreaterOperator type parameter std::deque > OK +100: StringTestCommon_GreaterOperator type parameter std::deque > OK +100: StringTestCommon_GreaterOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +78: test_parallel_atomic_xor OK +39: test_myers_find_banded OK +39: test_myers_find_banded_csp OK +39: test_myers_find_infix_find_begin_at_start OK +39: test_myers_find_infix_find_begin_within OK +39: test_find_on_segments OK +39: test_find_hamming_simple OK +39: test_find_hamming_simple_regression_rmbench OK +39: test_regression_rmbench OK +39: test_find_online_Simple OK +39: test_find_online_Horspool OK +39: test_find_online_ShiftAnd OK +39: test_find_online_ShiftOr OK +39: test_find_online_BndmAlgo OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +80: test_pipe_test_external_string OK +39: test_find_online_BFAM_Oracle OK +39: test_find_online_BFAM_Trie OK +39: test_find_online_wildcards OK +39: test_find_online_multi_AhoCorasick OK +39: test_find_online_multi_MultipleShiftAnd OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +39: test_find_online_multi_SetHorspool OK +107: test_store_io_write_amos OK +39: test_find_online_multi_WuManber OK +39: test_find_online_multi_MultiBFAM_Oracle OK +39: test_find_online_multi_MultiBFAM_Trie OK +39: test_find_approx_prefix_edit_dist_dpsearch OK +39: test_approx_prefix_edit_dist_myers OK +39: test_approx_edit_dist_dp_search_simple_score OK +39: test_approx_edit_dist_myers OK +39: test_approx_edit_dp_search_simple_score_legacy_case OK +39: test_approx_edit_dist_abndm_algo OK +111: test_translation_onestring_multiframe_parallel OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +39: test_approx_edit_dist_pex_non_hierarchical OK +39: test_approx_edit_dist_pex_hierarchical OK +39: test_approx_edit_dist_pex_non_hierarchical_aho_corasick OK +39: test_approx_edit_dist_pex_non_hierarchical_multi_bfam OK +39: test_find_hamming_simple OK +39: test_pattern_copycon OK +39: test_pattern_assign OK +39: test_pattern_movecon OK +39: test_pattern_moveassign OK +39: test_pattern_set_host OK +39: ************************************** +39: Total Tests: 39 +39: Skipped: 0 +39: Errors: 0 +39: ************************************** + 96/407 Test #39: test_test_find .................................................................... Passed 1.75 sec +test 116 + Start 116: test_demo_dox_align_gaps_example + +116: 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" +116: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +116: Test timeout computed to be: 10000000 +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +83: test_realign_simple_insert OK +115: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +115: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +114: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +114: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +58: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +83: test_realign_simple_insert_window OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +115: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats. +111: test_translation_onestring_multiframe_concatdirect_parallel OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +78: test_parallel_atomic_cas OK +114: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align. +114: Return code was 0. +114: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout", "None". +114: Standard output was as expected. +114: Standard error was as expected. +115: Return code was 0. +115: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout", "None". +115: Standard output was as expected. +115: Standard error was as expected. +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +83: test_realign_simple_insert_window_tight_left OK +100: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter seqan::String > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EqualOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_EqualOperator type parameter std::vector > OK +100: StringTestCommon_EqualOperator type parameter std::vector > OK +100: StringTestCommon_EqualOperator type parameter std::vector > OK +100: StringTestCommon_EqualOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_EqualOperator type parameter std::deque > OK +100: StringTestCommon_EqualOperator type parameter std::deque > OK +100: StringTestCommon_EqualOperator type parameter std::deque > OK +100: StringTestCommon_EqualOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_EqualOperator type parameter std::forward_list > OK +100: StringTestCommon_EqualOperator type parameter std::forward_list > OK +100: StringTestCommon_EqualOperator type parameter std::forward_list > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK + 97/407 Test #115: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.32 sec +test 117 + Start 117: test_demo_dox_align_global_alignment_banded + +117: 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" +117: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +117: Test timeout computed to be: 10000000 +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK + 98/407 Test #114: test_demo_dox_align_align ......................................................... Passed 0.36 sec +test 118 + Start 118: test_demo_dox_align_global_alignment_unbanded + +118: 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" +118: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +118: Test timeout computed to be: 10000000 +116: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +116: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +83: test_realign_simple_insert_window_tight_right OK +83: test_realign_tricky_insert_window_cuts OK +83: ************************************** +83: Total Tests: 10 +83: Skipped: 0 +83: Errors: 0 +83: ************************************** + 99/407 Test #83: test_test_realign ................................................................. Passed 1.36 sec +100: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +test 119 + Start 119: test_demo_dox_align_integrate_align + +119: 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" +119: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +119: Test timeout computed to be: 10000000 +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +65: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexSa > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexEsa > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::FMIndex > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +117: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +117: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +65: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +78: test_parallel_atomic_min OK +118: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +118: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +100: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter seqan::String > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_UnequalOperator type parameter std::vector, std::allocator > > OK +100: StringTestCommon_UnequalOperator type parameter std::vector > OK +100: StringTestCommon_UnequalOperator type parameter std::vector > OK +100: StringTestCommon_UnequalOperator type parameter std::vector > OK +100: StringTestCommon_UnequalOperator type parameter std::deque, std::allocator > > OK +100: StringTestCommon_UnequalOperator type parameter std::deque > OK +100: StringTestCommon_UnequalOperator type parameter std::deque > OK +100: StringTestCommon_UnequalOperator type parameter std::deque > OK +100: StringTestCommon_UnequalOperator type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +100: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +100: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +116: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example. +65: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexSa > OK +65: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexEsa > OK +65: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +65: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdString type parameter seqan::Index >, seqan::FMIndex > > OK +100: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +116: Return code was 0. +116: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout", "None". +116: Standard output was as expected. +116: Standard error was as expected. +100: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Assign type parameter seqan::String > > OK +100: StringTestCommon_Assign type parameter seqan::String > > OK +100: StringTestCommon_Assign type parameter seqan::String > > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter seqan::String > OK +100: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Assign type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Assign type parameter std::vector > OK +100: StringTestCommon_Assign type parameter std::vector > OK +100: StringTestCommon_Assign type parameter std::vector > OK +100: StringTestCommon_Assign type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Assign type parameter std::deque > OK +100: StringTestCommon_Assign type parameter std::deque > OK +100: StringTestCommon_Assign type parameter std::deque > OK +100: StringTestCommon_Assign type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Assign type parameter std::forward_list > OK +100: StringTestCommon_Assign type parameter std::forward_list > OK +100: StringTestCommon_Assign type parameter std::forward_list > OK +100: StringTestCommon_Assign type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Assign type parameter std::__cxx11::list > OK +100: StringTestCommon_Assign type parameter std::__cxx11::list > OK +100: StringTestCommon_Assign type parameter std::__cxx11::list > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +65: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +117: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded. +119: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +119: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +100: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +65: IndexFinderTest_StdString type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexSa > OK +65: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexEsa > OK +65: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +65: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +65: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::FMIndex > > OK +117: Return code was 0. +117: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout", "None". +117: Standard output was as expected. +117: Standard error was as expected. +100: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +80: test_pipe_test_simple_pool OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter seqan::String > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_OperatorAssign type parameter std::vector, std::allocator > > OK +100: StringTestCommon_OperatorAssign type parameter std::vector > OK +100: StringTestCommon_OperatorAssign type parameter std::vector > OK +100: StringTestCommon_OperatorAssign type parameter std::vector > OK +100: StringTestCommon_OperatorAssign type parameter std::deque, std::allocator > > OK +100: StringTestCommon_OperatorAssign type parameter std::deque > OK +100: StringTestCommon_OperatorAssign type parameter std::deque > OK +100: StringTestCommon_OperatorAssign type parameter std::deque > OK +100: StringTestCommon_OperatorAssign type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +100: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +100: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +100: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Swap type parameter seqan::String > > OK +100: StringTestCommon_Swap type parameter seqan::String > > OK +100: StringTestCommon_Swap type parameter seqan::String > > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter seqan::String > OK +100: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Swap type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Swap type parameter std::vector > OK +100: StringTestCommon_Swap type parameter std::vector > OK +100: StringTestCommon_Swap type parameter std::vector > OK +100: StringTestCommon_Swap type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Swap type parameter std::deque > OK +100: StringTestCommon_Swap type parameter std::deque > OK +100: StringTestCommon_Swap type parameter std::deque > OK +100: StringTestCommon_Swap type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Swap type parameter std::forward_list > OK +100: StringTestCommon_Swap type parameter std::forward_list > OK +100: StringTestCommon_Swap type parameter std::forward_list > OK +100: StringTestCommon_Swap type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Swap type parameter std::__cxx11::list > OK +100: StringTestCommon_Swap type parameter std::__cxx11::list > OK +100: StringTestCommon_Swap type parameter std::__cxx11::list > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +107: test_store_io_sam OK +118: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded. +100: StringTestCommon_Reverse type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +65: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +58: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +58: ************************************** +58: Total Tests: 239 +58: Skipped: 0 +58: Errors: 0 +58: ************************************** +65: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +65: ************************************** +65: Total Tests: 32 +65: Skipped: 0 +65: Errors: 0 +65: ************************************** +100/407 Test #58: test_test_index_fm_rank_dictionary ................................................ Passed 2.09 sec +test 120 + Start 120: test_demo_dox_align_extend_extend_alignment + +120: 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" +120: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +120: Test timeout computed to be: 10000000 +118: Return code was 0. +118: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout", "None". +118: Standard output was as expected. +118: Standard error was as expected. +101/407 Test #116: test_demo_dox_align_gaps_example .................................................. Passed 0.44 sec test 121 - Start 121: test_demo_dox_align_align + Start 121: test_demo_dox_align_split_split_alignment -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: 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" 121: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 121: Test timeout computed to be: 10000000 +102/407 Test #117: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.27 sec test 122 - Start 122: test_demo_dox_align_compute_alignment_stats + Start 122: test_demo_dox_bam_io_bam_tags_dict -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: 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" 122: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 122: Test timeout computed to be: 10000000 +100: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +103/407 Test #65: test_test_index_finder ............................................................ Passed 2.07 sec +104/407 Test #118: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.26 sec +100: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Reverse type parameter seqan::String > > OK +100: StringTestCommon_Reverse type parameter seqan::String > > OK +100: StringTestCommon_Reverse type parameter seqan::String > > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter seqan::String > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Reverse type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Reverse type parameter std::vector > OK +100: StringTestCommon_Reverse type parameter std::vector > OK +100: StringTestCommon_Reverse type parameter std::vector > OK +100: StringTestCommon_Reverse type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Reverse type parameter std::deque > OK test 123 - Start 123: test_demo_dox_align_gaps_example + Start 123: test_demo_dox_basic_zip_iterator -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: 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" 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 + Start 124: test_demo_dox_consensus_consensus_alignment -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: 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" 124: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 124: Test timeout computed to be: 10000000 +100: StringTestCommon_Reverse type parameter std::deque > OK +100: StringTestCommon_Reverse type parameter std::deque > OK +100: StringTestCommon_Reverse type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Reverse type parameter std::forward_list > OK +100: StringTestCommon_Reverse type parameter std::forward_list > OK +100: StringTestCommon_Reverse type parameter std::forward_list > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +100: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_AssignValue type parameter seqan::String > > OK +100: StringTestCommon_AssignValue type parameter seqan::String > > OK +100: StringTestCommon_AssignValue type parameter seqan::String > > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter seqan::String > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_AssignValue type parameter std::vector, std::allocator > > OK +100: StringTestCommon_AssignValue type parameter std::vector > OK +100: StringTestCommon_AssignValue type parameter std::vector > OK +100: StringTestCommon_AssignValue type parameter std::vector > OK +100: StringTestCommon_AssignValue type parameter std::deque, std::allocator > > OK +100: StringTestCommon_AssignValue type parameter std::deque > OK +100: StringTestCommon_AssignValue type parameter std::deque > OK +100: StringTestCommon_AssignValue type parameter std::deque > OK +100: StringTestCommon_AssignValue type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_AssignValue type parameter std::forward_list > OK +100: StringTestCommon_AssignValue type parameter std::forward_list > OK +100: StringTestCommon_AssignValue type parameter std::forward_list > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +100: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +119: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align. +119: Return code was 0. +119: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout", "None". +63: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::FMIndex > > OK +119: Standard output was as expected. +119: Standard error was as expected. +100: StringTestCommon_Append type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +105/407 Test #119: test_demo_dox_align_integrate_align ............................................... Passed 0.32 sec test 125 - Start 125: test_demo_dox_align_global_alignment_unbanded + Start 125: test_demo_dox_find_finder_index -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: 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" 125: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 125: Test timeout computed to be: 10000000 +100: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +78: test_parallel_atomic_max OK +78: test_parallel_splitter_equidistant OK +78: test_parallel_splitting_compute_splitters OK +120: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +120: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +100: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Append type parameter seqan::String > > OK +100: StringTestCommon_Append type parameter seqan::String > > OK +100: StringTestCommon_Append type parameter seqan::String > > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter seqan::String > OK +100: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Append type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Append type parameter std::vector > OK +100: StringTestCommon_Append type parameter std::vector > OK +100: StringTestCommon_Append type parameter std::vector > OK +100: StringTestCommon_Append type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Append type parameter std::deque > OK +100: StringTestCommon_Append type parameter std::deque > OK +100: StringTestCommon_Append type parameter std::deque > OK +100: StringTestCommon_Append type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Append type parameter std::forward_list > OK +100: StringTestCommon_Append type parameter std::forward_list > OK +100: StringTestCommon_Append type parameter std::forward_list > OK +100: StringTestCommon_Append type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Append type parameter std::__cxx11::list > OK +100: StringTestCommon_Append type parameter std::__cxx11::list > OK +100: StringTestCommon_Append type parameter std::__cxx11::list > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +111: test_translation_stringset_multiframe_parallel OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +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+)?") +78: test_parallel_sum OK +100: StringTestCommon_AppendValue 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+)?") +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+)?") +100: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_AppendValue type parameter seqan::String > > OK +100: StringTestCommon_AppendValue type parameter seqan::String > > OK +100: StringTestCommon_AppendValue type parameter seqan::String > > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter seqan::String > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_AppendValue type parameter std::vector, std::allocator > > OK +100: StringTestCommon_AppendValue type parameter std::vector > OK +100: StringTestCommon_AppendValue type parameter std::vector > OK +100: StringTestCommon_AppendValue type parameter std::vector > OK +100: StringTestCommon_AppendValue type parameter std::deque, std::allocator > > OK +100: StringTestCommon_AppendValue type parameter std::deque > OK +100: StringTestCommon_AppendValue type parameter std::deque > OK +100: StringTestCommon_AppendValue type parameter std::deque > OK +100: StringTestCommon_AppendValue type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_AppendValue type parameter std::forward_list > OK +100: StringTestCommon_AppendValue type parameter std::forward_list > OK +100: StringTestCommon_AppendValue type parameter std::forward_list > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +100: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +60: IndexTest_IndexCreate type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +60: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +60: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +60: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_Length type parameter seqan::Index >, seqan::FMIndex > > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Back type parameter seqan::String > > OK +100: StringTestCommon_Back type parameter seqan::String > > OK +100: StringTestCommon_Back type parameter seqan::String > > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter seqan::String > OK +100: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Back type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Back type parameter std::vector > OK +100: StringTestCommon_Back type parameter std::vector > OK +100: StringTestCommon_Back type parameter std::vector > OK +100: StringTestCommon_Back type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Back type parameter std::deque > OK +100: StringTestCommon_Back type parameter std::deque > OK +100: StringTestCommon_Back type parameter std::deque > OK +100: StringTestCommon_Back type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Back type parameter std::forward_list > OK +100: StringTestCommon_Back type parameter std::forward_list > OK +100: StringTestCommon_Back type parameter std::forward_list > OK +100: StringTestCommon_Back type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Back type parameter std::__cxx11::list > OK +100: StringTestCommon_Back type parameter std::__cxx11::list > OK +100: StringTestCommon_Back type parameter std::__cxx11::list > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +122: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. +100: StringTestCommon_Begin type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +60: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +100: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Begin type parameter seqan::String > > OK +100: StringTestCommon_Begin type parameter seqan::String > > OK +100: StringTestCommon_Begin type parameter seqan::String > > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter seqan::String > OK +100: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Begin type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Begin type parameter std::vector > OK +100: StringTestCommon_Begin type parameter std::vector > OK +100: StringTestCommon_Begin type parameter std::vector > OK +100: StringTestCommon_Begin type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Begin type parameter std::deque > OK +100: StringTestCommon_Begin type parameter std::deque > OK +100: StringTestCommon_Begin type parameter std::deque > OK +100: StringTestCommon_Begin type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Begin type parameter std::forward_list > OK +100: StringTestCommon_Begin type parameter std::forward_list > OK +100: StringTestCommon_Begin type parameter std::forward_list > OK +100: StringTestCommon_Begin type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Begin type parameter std::__cxx11::list > OK +100: StringTestCommon_Begin type parameter std::__cxx11::list > OK +100: StringTestCommon_Begin type parameter std::__cxx11::list > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +120: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment. +100: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter seqan::String > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_BeginPosition type parameter std::vector, std::allocator > > OK +100: StringTestCommon_BeginPosition type parameter std::vector > OK +100: StringTestCommon_BeginPosition type parameter std::vector > OK +100: StringTestCommon_BeginPosition type parameter std::vector > OK +100: StringTestCommon_BeginPosition type parameter std::deque, std::allocator > > OK +100: StringTestCommon_BeginPosition type parameter std::deque > OK +100: StringTestCommon_BeginPosition type parameter std::deque > OK +100: StringTestCommon_BeginPosition type parameter std::deque > OK +100: StringTestCommon_BeginPosition type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_BeginPosition type parameter std::forward_list > OK +100: StringTestCommon_BeginPosition type parameter std::forward_list > OK +100: StringTestCommon_BeginPosition type parameter std::forward_list > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +61: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +60: IndexTest_Length type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +60: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +60: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +60: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::FMIndex > > OK +62: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +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+)?") +100: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +122: Return code was 0. +122: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout", "None". +122: Standard output was as expected. +122: Standard error was as expected. +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+)?") +100: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Capacity type parameter seqan::String > > OK +100: StringTestCommon_Capacity type parameter seqan::String > > OK +100: StringTestCommon_Capacity type parameter seqan::String > > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter seqan::String > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Capacity type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Capacity type parameter std::vector > OK +100: StringTestCommon_Capacity type parameter std::vector > OK +100: StringTestCommon_Capacity type parameter std::vector > OK +100: StringTestCommon_Capacity type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Capacity type parameter std::deque > OK +100: StringTestCommon_Capacity type parameter std::deque > OK +100: StringTestCommon_Capacity type parameter std::deque > OK +100: StringTestCommon_Capacity type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Capacity type parameter std::forward_list > OK +100: StringTestCommon_Capacity type parameter std::forward_list > OK +100: StringTestCommon_Capacity type parameter std::forward_list > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +100: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Clear type parameter seqan::String > > OK +100: StringTestCommon_Clear type parameter seqan::String > > OK +100: StringTestCommon_Clear type parameter seqan::String > > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter seqan::String > OK +100: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Clear type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Clear type parameter std::vector > OK +100: StringTestCommon_Clear type parameter std::vector > OK +100: StringTestCommon_Clear type parameter std::vector > OK +100: StringTestCommon_Clear type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Clear type parameter std::deque > OK +100: StringTestCommon_Clear type parameter std::deque > OK +100: StringTestCommon_Clear type parameter std::deque > OK +100: StringTestCommon_Clear type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Clear type parameter std::forward_list > OK +100: StringTestCommon_Clear type parameter std::forward_list > OK +100: StringTestCommon_Clear type parameter std::forward_list > OK +100: StringTestCommon_Clear type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Clear type parameter std::__cxx11::list > OK +100: StringTestCommon_Clear type parameter std::__cxx11::list > OK +100: StringTestCommon_Clear type parameter std::__cxx11::list > OK +100: StringTestCommon_End type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_End type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_End type parameter seqan::String > > OK +100: StringTestCommon_End type parameter seqan::String > > OK +100: StringTestCommon_End type parameter seqan::String > > OK +100: StringTestCommon_End type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter seqan::String > OK +100: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_End type parameter std::vector, std::allocator > > OK +100: StringTestCommon_End type parameter std::vector > OK +100: StringTestCommon_End type parameter std::vector > OK +100: StringTestCommon_End type parameter std::vector > OK +100: StringTestCommon_End type parameter std::deque, std::allocator > > OK +100: StringTestCommon_End type parameter std::deque > OK +100: StringTestCommon_End type parameter std::deque > OK +100: StringTestCommon_End type parameter std::deque > OK +100: StringTestCommon_End type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_End type parameter std::forward_list > OK +100: StringTestCommon_End type parameter std::forward_list > OK +100: StringTestCommon_End type parameter std::forward_list > OK +100: StringTestCommon_End type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_End type parameter std::__cxx11::list > OK +100: StringTestCommon_End type parameter std::__cxx11::list > OK +100: StringTestCommon_End type parameter std::__cxx11::list > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EndPosition type parameter seqan::String > > OK +100: StringTestCommon_EndPosition type parameter seqan::String > > OK +100: StringTestCommon_EndPosition type parameter seqan::String > > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter seqan::String > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EndPosition type parameter std::vector, std::allocator > > OK +100: StringTestCommon_EndPosition type parameter std::vector > OK +100: StringTestCommon_EndPosition type parameter std::vector > OK +100: StringTestCommon_EndPosition type parameter std::vector > OK +100: StringTestCommon_EndPosition type parameter std::deque, std::allocator > > OK +100: StringTestCommon_EndPosition type parameter std::deque > OK +100: StringTestCommon_EndPosition type parameter std::deque > OK +100: StringTestCommon_EndPosition type parameter std::deque > OK +100: StringTestCommon_EndPosition type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_EndPosition type parameter std::forward_list > OK +100: StringTestCommon_EndPosition type parameter std::forward_list > OK +100: StringTestCommon_EndPosition type parameter std::forward_list > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Erase type parameter seqan::String > > OK +100: StringTestCommon_Erase type parameter seqan::String > > OK +100: StringTestCommon_Erase type parameter seqan::String > > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter seqan::String > OK +100: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Erase type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Erase type parameter std::vector > OK +100: StringTestCommon_Erase type parameter std::vector > OK +100: StringTestCommon_Erase type parameter std::vector > OK +100: StringTestCommon_Erase type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Erase type parameter std::deque > OK +100: StringTestCommon_Erase type parameter std::deque > OK +100: StringTestCommon_Erase type parameter std::deque > OK +100: StringTestCommon_Erase type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Erase type parameter std::forward_list > OK +100: StringTestCommon_Erase type parameter std::forward_list > OK +100: StringTestCommon_Erase type parameter std::forward_list > OK +100: StringTestCommon_Erase type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Erase type parameter std::__cxx11::list > OK +100: StringTestCommon_Erase type parameter std::__cxx11::list > OK +100: StringTestCommon_Erase type parameter std::__cxx11::list > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +121: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment. +120: Return code was 0. +120: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout", "None". +120: Standard output was as expected. +120: Standard error was as expected. +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106/407 Test #122: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.32 sec test 126 - Start 126: test_demo_dox_align_integrate_align + Start 126: test_demo_dox_find_finder_online -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: 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" 126: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 126: Test timeout computed to be: 10000000 +100: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_EraseBack type parameter seqan::String > > OK +100: StringTestCommon_EraseBack type parameter seqan::String > > OK +100: StringTestCommon_EraseBack type parameter seqan::String > > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter seqan::String > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_EraseBack type parameter std::vector, std::allocator > > OK +100: StringTestCommon_EraseBack type parameter std::vector > OK +100: StringTestCommon_EraseBack type parameter std::vector > OK +100: StringTestCommon_EraseBack type parameter std::vector > OK +100: StringTestCommon_EraseBack type parameter std::deque, std::allocator > > OK +100: StringTestCommon_EraseBack type parameter std::deque > OK +100: StringTestCommon_EraseBack type parameter std::deque > OK +100: StringTestCommon_EraseBack type parameter std::deque > OK +100: StringTestCommon_EraseBack type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_EraseBack type parameter std::forward_list > OK +100: StringTestCommon_EraseBack type parameter std::forward_list > OK +100: StringTestCommon_EraseBack type parameter std::forward_list > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +100: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +78: test_parallel_partial_sum OK +78: test_parallel_queue_simple OK +78: test_parallel_queue_resize OK +78: test_parallel_queue_non_pod OK +121: Return code was 0. +121: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout", "None". +121: Standard output was as expected. +121: Standard error was as expected. +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::Array<100ul> > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::Block<4096ul> > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String, seqan::Alloc > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter seqan::String > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::vector, std::allocator > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::vector > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::vector > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::vector > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::deque, std::allocator > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::deque > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::deque > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::deque > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::forward_list, std::allocator > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::forward_list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::forward_list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::forward_list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::list, std::allocator > > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::list > OK +100: 1398 +100: 1400 +100: StringTestCommon_Front type parameter std::__cxx11::list > OK +100: StringTestCommon_GetValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::MMap >, unsigned long> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::Array<100ul> > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::Block<4096ul> > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String, seqan::Alloc > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +100: StringTestCommon_GetValue type parameter std::vector, std::allocator > > SKIPPED +100: StringTestCommon_GetValue type parameter std::vector > SKIPPED +100: StringTestCommon_GetValue type parameter std::vector > SKIPPED +100: StringTestCommon_GetValue type parameter std::vector > SKIPPED +100: StringTestCommon_GetValue type parameter std::deque, std::allocator > > SKIPPED +100: StringTestCommon_GetValue type parameter std::deque > SKIPPED +100: StringTestCommon_GetValue type parameter std::deque > SKIPPED +100: StringTestCommon_GetValue type parameter std::deque > SKIPPED +100: StringTestCommon_GetValue type parameter std::forward_list, std::allocator > > SKIPPED +100: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +100: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +100: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::list, std::allocator > > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +100: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +100: StringTestCommon_Insert type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +123: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator. +100: StringTestCommon_Insert type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +123: Return code was 0. +123: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout", "None". +123: Standard output was as expected. +123: Standard error was as expected. +78: threads: 2 +78: writers: 1 +107: test_store_io_sam2 OK +100: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +107/407 Test #120: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.42 sec test 127 - Start 127: test_demo_dox_align_extend_extend_alignment + Start 127: test_demo_dox_graph_algorithms_all_pairs_shortest_path -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: 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" 127: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 127: Test timeout computed to be: 10000000 +100: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Insert type parameter seqan::String > > OK +100: StringTestCommon_Insert type parameter seqan::String > > OK +100: StringTestCommon_Insert type parameter seqan::String > > OK +100: StringTestCommon_Insert type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter seqan::String > OK +100: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Insert type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Insert type parameter std::vector > OK +100: StringTestCommon_Insert type parameter std::vector > OK +100: StringTestCommon_Insert type parameter std::vector > OK +100: StringTestCommon_Insert type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Insert type parameter std::deque > OK +100: StringTestCommon_Insert type parameter std::deque > OK +100: StringTestCommon_Insert type parameter std::deque > OK +100: StringTestCommon_Insert type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Insert type parameter std::forward_list > OK +100: StringTestCommon_Insert type parameter std::forward_list > OK +100: StringTestCommon_Insert type parameter std::forward_list > OK +100: StringTestCommon_Insert type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Insert type parameter std::__cxx11::list > OK +100: StringTestCommon_Insert type parameter std::__cxx11::list > OK +100: StringTestCommon_Insert type parameter std::__cxx11::list > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +125: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +108/407 Test #121: test_demo_dox_align_split_split_alignment ......................................... Passed 0.44 sec test 128 - Start 128: test_demo_dox_align_split_split_alignment + Start 128: test_demo_dox_graph_algorithms_bellman_ford_algorithm -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: 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" 128: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 128: Test timeout computed to be: 10000000 +100: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_InsertValue type parameter seqan::String > > OK +100: StringTestCommon_InsertValue type parameter seqan::String > > OK +100: StringTestCommon_InsertValue type parameter seqan::String > > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter seqan::String > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_InsertValue type parameter std::vector, std::allocator > > OK +100: StringTestCommon_InsertValue type parameter std::vector > OK +100: StringTestCommon_InsertValue type parameter std::vector > OK +100: StringTestCommon_InsertValue type parameter std::vector > OK +100: StringTestCommon_InsertValue type parameter std::deque, std::allocator > > OK +100: StringTestCommon_InsertValue type parameter std::deque > OK +100: StringTestCommon_InsertValue type parameter std::deque > OK +100: StringTestCommon_InsertValue type parameter std::deque > OK +100: StringTestCommon_InsertValue type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_InsertValue type parameter std::forward_list > OK +100: StringTestCommon_InsertValue type parameter std::forward_list > OK +100: StringTestCommon_InsertValue type parameter std::forward_list > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +100: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Iter type parameter seqan::String > > OK +100: StringTestCommon_Iter type parameter seqan::String > > OK +100: StringTestCommon_Iter type parameter seqan::String > > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter seqan::String > OK +100: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Iter type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Iter type parameter std::vector > OK +100: StringTestCommon_Iter type parameter std::vector > OK +100: StringTestCommon_Iter type parameter std::vector > OK +100: StringTestCommon_Iter type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Iter type parameter std::deque > OK +100: StringTestCommon_Iter type parameter std::deque > OK +100: StringTestCommon_Iter type parameter std::deque > OK +100: StringTestCommon_Iter type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Iter type parameter std::forward_list > OK +100: StringTestCommon_Iter type parameter std::forward_list > OK +100: StringTestCommon_Iter type parameter std::forward_list > OK +100: StringTestCommon_Iter type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Iter type parameter std::__cxx11::list > OK +100: StringTestCommon_Iter type parameter std::__cxx11::list > OK +100: StringTestCommon_Iter type parameter std::__cxx11::list > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > 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+)?") +125: Return code was 0. +125: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout", "None". +125: Standard output was as expected. +125: Standard error was as expected. +100: StringTestCommon_Length type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +109/407 Test #123: test_demo_dox_basic_zip_iterator .................................................. Passed 0.43 sec test 129 - Start 129: test_demo_dox_bam_io_bam_tags_dict + Start 129: test_demo_dox_graph_algorithms_breadth_first_search -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: 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" 129: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 129: Test timeout computed to be: 10000000 +124: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment. +100: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Length type parameter seqan::String > > OK +100: StringTestCommon_Length type parameter seqan::String > > OK +100: StringTestCommon_Length type parameter seqan::String > > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter seqan::String > OK +100: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Length type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Length type parameter std::vector > OK +100: StringTestCommon_Length type parameter std::vector > OK +100: StringTestCommon_Length type parameter std::vector > OK +100: StringTestCommon_Length type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Length type parameter std::deque > OK +100: StringTestCommon_Length type parameter std::deque > OK +100: StringTestCommon_Length type parameter std::deque > OK +100: StringTestCommon_Length type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Length type parameter std::forward_list > OK +100: StringTestCommon_Length type parameter std::forward_list > OK +100: StringTestCommon_Length type parameter std::forward_list > OK +100: StringTestCommon_Length type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Length type parameter std::__cxx11::list > OK +100: StringTestCommon_Length type parameter std::__cxx11::list > OK +100: StringTestCommon_Length type parameter std::__cxx11::list > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_MoveValue type parameter seqan::String > > OK +100: StringTestCommon_MoveValue type parameter seqan::String > > OK +100: StringTestCommon_MoveValue type parameter seqan::String > > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter seqan::String > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_MoveValue type parameter std::vector, std::allocator > > OK +100: StringTestCommon_MoveValue type parameter std::vector > OK +100: StringTestCommon_MoveValue type parameter std::vector > OK +100: StringTestCommon_MoveValue type parameter std::vector > OK +100: StringTestCommon_MoveValue type parameter std::deque, std::allocator > > OK +100: StringTestCommon_MoveValue type parameter std::deque > OK +100: StringTestCommon_MoveValue type parameter std::deque > OK +100: StringTestCommon_MoveValue type parameter std::deque > OK +100: StringTestCommon_MoveValue type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_MoveValue type parameter std::forward_list > OK +100: StringTestCommon_MoveValue type parameter std::forward_list > OK +100: StringTestCommon_MoveValue type parameter std::forward_list > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +100: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +110/407 Test #125: test_demo_dox_find_finder_index ................................................... Passed 0.39 sec test 130 - Start 130: test_demo_dox_basic_zip_iterator + Start 130: test_demo_dox_graph_algorithms_dag_shortest_path -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: 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_dag_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.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 +126: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. +100: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +126: Return code was 0. +126: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout", "None". +126: Standard output was as expected. +126: Standard error was as expected. +100: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +124: Return code was 0. +124: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout", "None". +124: Standard output was as expected. +124: Standard error was as expected. +100: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Replace type parameter seqan::String > > OK +100: StringTestCommon_Replace type parameter seqan::String > > OK +100: StringTestCommon_Replace type parameter seqan::String > > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter seqan::String > OK +100: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Replace type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Replace type parameter std::vector > OK +100: StringTestCommon_Replace type parameter std::vector > OK +100: StringTestCommon_Replace type parameter std::vector > OK +100: StringTestCommon_Replace type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Replace type parameter std::deque > OK +100: StringTestCommon_Replace type parameter std::deque > OK +100: StringTestCommon_Replace type parameter std::deque > OK +100: StringTestCommon_Replace type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Replace type parameter std::forward_list > OK +100: StringTestCommon_Replace type parameter std::forward_list > OK +100: StringTestCommon_Replace type parameter std::forward_list > OK +100: StringTestCommon_Replace type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Replace type parameter std::__cxx11::list > OK +100: StringTestCommon_Replace type parameter std::__cxx11::list > OK +100: StringTestCommon_Replace type parameter std::__cxx11::list > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Reserve type parameter seqan::String > > OK +100: StringTestCommon_Reserve type parameter seqan::String > > OK +100: StringTestCommon_Reserve type parameter seqan::String > > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter seqan::String > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Reserve type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Reserve type parameter std::vector > OK +100: StringTestCommon_Reserve type parameter std::vector > OK +100: StringTestCommon_Reserve type parameter std::vector > OK +100: StringTestCommon_Reserve type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Reserve type parameter std::deque > OK +100: StringTestCommon_Reserve type parameter std::deque > OK +100: StringTestCommon_Reserve type parameter std::deque > OK +100: StringTestCommon_Reserve type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Reserve type parameter std::forward_list > OK +100: StringTestCommon_Reserve type parameter std::forward_list > OK +100: StringTestCommon_Reserve type parameter std::forward_list > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +100: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +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+)?") +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+)?") +100: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Resize type parameter seqan::String > > OK +100: StringTestCommon_Resize type parameter seqan::String > > OK +100: StringTestCommon_Resize type parameter seqan::String > > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter seqan::String > OK +100: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Resize type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Resize type parameter std::vector > OK +100: StringTestCommon_Resize type parameter std::vector > OK +100: StringTestCommon_Resize type parameter std::vector > OK +100: StringTestCommon_Resize type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Resize type parameter std::deque > OK +100: StringTestCommon_Resize type parameter std::deque > OK +100: StringTestCommon_Resize type parameter std::deque > OK +100: StringTestCommon_Resize type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Resize type parameter std::forward_list > OK +100: StringTestCommon_Resize type parameter std::forward_list > OK +100: StringTestCommon_Resize type parameter std::forward_list > OK +100: StringTestCommon_Resize type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Resize type parameter std::__cxx11::list > OK +100: StringTestCommon_Resize type parameter std::__cxx11::list > OK +100: StringTestCommon_Resize type parameter std::__cxx11::list > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +100: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +100: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +100: StringTestCommon_Value type parameter seqan::String > > OK +100: StringTestCommon_Value type parameter seqan::String > > OK +100: StringTestCommon_Value type parameter seqan::String > > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::Array<100ul> > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::Block<4096ul> > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String, seqan::Alloc > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter seqan::String > OK +100: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +100: StringTestCommon_Value type parameter std::vector, std::allocator > > OK +100: StringTestCommon_Value type parameter std::vector > OK +100: StringTestCommon_Value type parameter std::vector > OK +100: StringTestCommon_Value type parameter std::vector > OK +100: StringTestCommon_Value type parameter std::deque, std::allocator > > OK +100: StringTestCommon_Value type parameter std::deque > OK +100: StringTestCommon_Value type parameter std::deque > OK +100: StringTestCommon_Value type parameter std::deque > OK +100: StringTestCommon_Value type parameter std::forward_list, std::allocator > > OK +100: StringTestCommon_Value type parameter std::forward_list > OK +100: StringTestCommon_Value type parameter std::forward_list > OK +100: StringTestCommon_Value type parameter std::forward_list > OK +100: StringTestCommon_Value type parameter std::__cxx11::list, std::allocator > > OK +100: StringTestCommon_Value type parameter std::__cxx11::list > OK +100: StringTestCommon_Value type parameter std::__cxx11::list > OK +100: StringTestCommon_Value type parameter std::__cxx11::list > OK +100: ************************************** +100: Total Tests: 1505 +100: Skipped: 43 +100: Errors: 0 +100: ************************************** +111/407 Test #100: test_test_sequence_v2 ............................................................. Passed 1.70 sec +112/407 Test #126: test_demo_dox_find_finder_online .................................................. Passed 0.24 sec test 131 - Start 131: test_demo_dox_consensus_consensus_alignment + Start 131: test_demo_dox_graph_algorithms_depth_first_search -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: 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_depth_first_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.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 -84: test_parallel_atomic_add 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: ************************************** -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 -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -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 -107: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -107: ************************************** -107: Total Tests: 576 -107: Skipped: 18 -107: Errors: 0 -107: ************************************** -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 -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 -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 -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 -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, 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 -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 -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 -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 -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -16: ************************************** -16: Total Tests: 12 -16: Skipped: 0 -16: Errors: 0 -16: ************************************** -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -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: ************************************** -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -86: test_pipe_test_external_string OK -113: TEST SUITE test_statistics -113: SEQAN_ENABLE_DEBUG == 1 -113: SEQAN_ENABLE_TESTING == 1 -113: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -113: SEQAN_ASYNC_IO == 1 -113: test_statistics_markov_model OK -113: test_statistics_statistics OK -113: ************************************** -113: Total Tests: 2 -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 -114: test_store_io_write_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 -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 -115: FileStreamTest_WriteSimpleUsage type parameter seqan::MMap >, unsigned long> > OK -115: FileStreamTest_WriteComplexUsage type parameter seqan::Async OK -115: FileStreamTest_WriteComplexUsage type parameter seqan::MMap >, unsigned long> > OK -115: FileStreamTest_Eof type parameter seqan::Async OK -115: FileStreamTest_Eof type parameter seqan::MMap >, unsigned long> > OK -115: FileStreamTest_Seek type parameter seqan::Async OK -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 -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 -117: test_tabix_io_read_indexed_vcf OK -117: ************************************** -117: Total Tests: 1 -117: Skipped: 0 -117: Errors: 0 -117: ************************************** -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 -119: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -119: SEQAN_ASYNC_IO == 1 -119: test_ucsc_io_read_record_ucsc_known_genes OK -119: test_ucsc_io_read_record_ucsc_known_isoforms OK -119: test_ucsc_io_write_record_ucsc_known_genes OK -119: test_ucsc_io_write_record_ucsc_known_isoforms OK -119: test_ucsc_io_ucsc_file_in_read_record_ucsc_known_genes OK -119: test_ucsc_io_ucsc_file_in_read_record_ucsc_known_isoforms OK -119: test_ucsc_io_ucsc_file_out_write_record_ucsc_known_genes OK -119: test_ucsc_io_ucsc_file_out_write_record_ucsc_known_isoforms OK -119: ************************************** -119: Total Tests: 8 -119: Skipped: 0 -119: Errors: 0 -119: ************************************** -120: TEST SUITE test_vcf_io -120: SEQAN_ENABLE_DEBUG == 1 -120: SEQAN_ENABLE_TESTING == 1 -120: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -120: SEQAN_ASYNC_IO == 1 -120: test_vcf_io_read_vcf_header OK -120: test_vcf_io_read_vcf_record OK -120: test_vcf_io_vcf_file_read_record OK -120: test_vcf_io_write_vcf_header OK -120: test_vcf_io_write_vcf_record OK -120: test_vcf_io_vcf_file_write_record OK -120: test_vcf_io_isOpen_fileIn OK -120: test_vcf_io_isOpen_fileOut OK -120: ************************************** -120: Total Tests: 8 -120: Skipped: 0 -120: Errors: 0 -120: ************************************** - 90/414 Test #16: test_test_align_parallel_interface ................................................ Passed 1.29 sec - 91/414 Test #45: test_test_find .................................................................... Passed 1.10 sec - 92/414 Test #89: test_test_realign ................................................................. Passed 0.59 sec - 93/414 Test #107: test_test_stringset_v2 ............................................................ Passed 0.36 sec - 94/414 Test #112: test_test_simple_intervals_io ..................................................... Passed 0.32 sec - 95/414 Test #113: test_test_statistics .............................................................. Passed 0.31 sec - 96/414 Test #116: test_test_find_swift .............................................................. Passed 0.28 sec - 97/414 Test #119: test_ucsc_io ...................................................................... Passed 0.24 sec - 98/414 Test #120: test_test_vcf_io .................................................................. Passed 0.23 sec test 132 - Start 132: test_demo_dox_find_finder_index + Start 132: test_demo_dox_graph_algorithms_dijkstra -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: 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_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.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 +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+)?") +129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search. +113/407 Test #124: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.58 sec test 133 - Start 133: test_demo_dox_find_finder_online + Start 133: test_demo_dox_graph_algorithms_floyd_warshall_algorithm -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: 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_floyd_warshall_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.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 +129: Return code was 0. +129: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout", "None". +129: Standard output was as expected. +129: Standard error was as expected. +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+)?") +111: test_translation_stringset_multiframe_concatdirect_parallel OK +111: ************************************** +111: Total Tests: 10 +111: Skipped: 0 +111: Errors: 0 +111: ************************************** +114/407 Test #129: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.18 sec test 134 - Start 134: test_demo_dox_graph_algorithms_all_pairs_shortest_path + Start 134: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm -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: 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" 134: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 134: Test timeout computed to be: 10000000 +128: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm. +127: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. +115/407 Test #111: test_translation .................................................................. Passed 1.34 sec test 135 - Start 135: test_demo_dox_graph_algorithms_bellman_ford_algorithm + Start 135: test_demo_dox_graph_algorithms_kruskals_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: 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" 135: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 135: Test timeout computed to be: 10000000 +127: Return code was 0. +127: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout", "None". +127: Standard output was as expected. +127: Standard error was as expected. +128: Return code was 0. +128: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout", "None". +128: Standard output was as expected. +128: Standard error was as expected. +107: test_store_io_split_sam OK +116/407 Test #128: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.26 sec test 136 - Start 136: test_demo_dox_graph_algorithms_breadth_first_search + Start 136: test_demo_dox_graph_algorithms_prims_algorithm -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: 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" 136: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 136: Test timeout computed to be: 10000000 +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+)?") +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+)?") +130: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. +117/407 Test #127: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.31 sec +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+)?") test 137 - Start 137: test_demo_dox_graph_algorithms_dag_shortest_path + Start 137: test_demo_dox_graph_algorithms_strongly_connected_components -137: 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_dag_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout" +137: 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" 137: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 137: 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+)?") +108: FileStreamTest_ReadLarge type parameter seqan::Async OK +130: Return code was 0. +130: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout", "None". +130: Standard output was as expected. +130: Standard error was as expected. +134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm. +131: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_depth_first_search. +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+)?") +132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dijkstra. +118/407 Test #130: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.26 sec +131: Return code was 0. +131: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout", "None". +131: Standard output was as expected. +131: Standard error was as expected. test 138 - Start 138: test_demo_dox_graph_algorithms_depth_first_search + Start 138: test_demo_dox_graph_algorithms_topological_sort -138: 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_depth_first_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout" +138: 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" 138: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 138: Test timeout computed to be: 10000000 +133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm. +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+)?") +134: Return code was 0. +134: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout", "None". +134: Standard output was as expected. +134: Standard error was as expected. +132: Return code was 0. +132: 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. +119/407 Test #131: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.22 sec +133: Return code was 0. +133: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout", "None". +133: Standard output was as expected. +133: Standard error was as expected. test 139 - Start 139: test_demo_dox_graph_algorithms_dijkstra + Start 139: test_demo_dox_graph_algorithms_transitive_closure -139: 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_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp.stdout" +139: 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" 139: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 139: Test timeout computed to be: 10000000 +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+)?") +107: test_store_io_read_bam OK +107: ************************************** +107: Total Tests: 14 +107: Skipped: 0 +107: Errors: 0 +107: ************************************** +135: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm. +135: Return code was 0. +135: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout", "None". +135: Standard output was as expected. +135: Standard error was as expected. +137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components. +120/407 Test #107: test_test_store ................................................................... Passed 1.70 sec +121/407 Test #132: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.23 sec +122/407 Test #133: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.20 sec +123/407 Test #134: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.18 sec test 140 - Start 140: test_demo_dox_graph_algorithms_floyd_warshall_algorithm + Start 140: test_demo_dox_graph_types_graph_algo_dijkstra -140: 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_floyd_warshall_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout" +140: 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" 140: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 140: Test timeout computed to be: 10000000 - 99/414 Test #117: test_test_tabix_io ................................................................ Passed 0.36 sec -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: ************************************** -100/414 Test #104: test_test_seq_io .................................................................. Passed 0.48 sec -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > 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+)?") -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. -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+)?") -122: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats. -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. -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. -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. test 141 - Start 141: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm + Start 141: test_demo_dox_index_begin_atEnd_representative -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: 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_begin_atEnd_representative" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.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 test 142 - Start 142: test_demo_dox_graph_algorithms_kruskals_algorithm + Start 142: test_demo_dox_index_counting -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: 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" 142: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 142: Test timeout computed to be: 10000000 -118: test_translation_onestring_multiframe_concatdirect_parallel 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+)?") -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. -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 -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+)?") -129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. -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. -71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -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+)?") -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". -130: Standard output was as expected. -130: 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: ************************************** -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 -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. -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. -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. -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+)?") -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. -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+)?") -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+)?") -132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. -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. -101/414 Test #64: test_test_index_fm_rank_dictionary ................................................ Passed 1.09 sec -102/414 Test #121: test_demo_dox_align_align ......................................................... Passed 0.28 sec -103/414 Test #122: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.27 sec -104/414 Test #125: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.24 sec test 143 - Start 143: test_demo_dox_graph_algorithms_prims_algorithm + Start 143: test_demo_dox_index_finder -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: 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" 143: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 143: Test timeout computed to be: 10000000 +137: Return code was 0. +137: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout", "None". +137: Standard output was as expected. +137: Standard error was as expected. +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+)?") +138: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort. +138: Return code was 0. +138: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout", "None". +138: Standard output was as expected. +138: Standard error was as expected. +78: stop reader #1 100000 +78: throughput: 216514 values/s +78: cap: 30 +78: test_parallel_queue_spsc_fixedsize OK +78: threads: 2 +78: writers: 1 +136: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm. +136: Return code was 0. +136: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout", "None". +136: Standard output was as expected. +136: Standard error was as expected. +124/407 Test #135: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.22 sec +125/407 Test #137: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.17 sec +126/407 Test #138: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.12 sec test 144 - Start 144: test_demo_dox_graph_algorithms_strongly_connected_components + Start 144: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre -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: 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" 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 + Start 145: test_demo_dox_index_iterator -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: 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" 145: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 145: Test timeout computed to be: 10000000 test 146 - Start 146: test_demo_dox_graph_algorithms_transitive_closure + Start 146: test_demo_dox_index_iterator_short -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: 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" 146: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 146: Test timeout computed to be: 10000000 -105/414 Test #126: test_demo_dox_align_integrate_align ............................................... Passed 0.29 sec -106/414 Test #130: test_demo_dox_basic_zip_iterator .................................................. Passed 0.25 sec -107/414 Test #128: test_demo_dox_align_split_split_alignment ......................................... Passed 0.27 sec -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+)?") -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. -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+)?") -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. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -114: test_store_io_sam OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +78: stop reader #1 100000 +78: throughput: 1717929 values/s +78: cap: 33923 +78: test_parallel_queue_spsc_dynamicsize OK +78: threads: 4 +78: writers: 1 +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+)?") +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+)?") +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+)?") +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+)?") +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+)?") +127/407 Test #136: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.25 sec test 147 - Start 147: test_demo_dox_graph_types_graph_algo_dijkstra + Start 147: test_demo_dox_index_length_countSequences -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: 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" 147: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 147: Test timeout computed to be: 10000000 +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +141: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_begin_atEnd_representative. +139: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure. +140: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra. +141: Return code was 0. +141: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout", "None". +141: Standard output was as expected. +141: 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+)?") +140: Return code was 0. +140: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout", "None". +140: Standard output was as expected. +140: Standard error was as expected. +139: Return code was 0. +139: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout", "None". +139: Standard output was as expected. +139: Standard error was as expected. +143: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder. +128/407 Test #141: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.16 sec test 148 - Start 148: test_demo_dox_index_begin_atEnd_representative + Start 148: test_demo_dox_index_mummy -148: 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_begin_atEnd_representative" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout" +148: 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" 148: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 148: Test timeout computed to be: 10000000 +142: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_counting. +143: Return code was 0. +143: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout", "None". +143: Standard output was as expected. +143: 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+)?") +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+)?") +129/407 Test #140: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.20 sec test 149 - Start 149: test_demo_dox_index_counting + Start 149: test_demo_dox_index_open_save -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: 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" 149: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 149: Test timeout computed to be: 10000000 -108/414 Test #136: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.19 sec -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. -109/414 Test #129: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.29 sec -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+)?") -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. -21: test_align_parallel_wavefront_multiple_global_alignment_simd OK -21: ************************************** -21: Total Tests: 3 -21: Skipped: 0 -21: Errors: 0 -21: ************************************** -110/414 Test #21: test_test_align_parallel_algorithm_avx2_host ...................................... Passed 1.52 sec -111/414 Test #132: test_demo_dox_find_finder_index ................................................... Passed 0.24 sec -84: test_parallel_atomic_or OK -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. -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+)?") -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. -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+)?") -137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. -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 -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. -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+)?") -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 -86: test_pipe_test_simple_pool OK -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. +142: Return code was 0. +142: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp.stdout", "None". +142: Standard output was as expected. +142: Standard error was as expected. +130/407 Test #139: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.25 sec test 150 - Start 150: test_demo_dox_index_finder + Start 150: test_demo_dox_index_sufarray -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: 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" 150: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 150: Test timeout computed to be: 10000000 +144: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. +144: Return code was 0. +144: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout", "None". +131/407 Test #143: test_demo_dox_index_finder ........................................................ Passed 0.20 sec +144: Standard output was as expected. +144: Standard error was as expected. test 151 - Start 151: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre + Start 151: test_demo_dox_index_textAt_indexText_saAt_indexRequire -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: 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" 151: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 151: Test timeout computed to be: 10000000 +147: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. +132/407 Test #142: test_demo_dox_index_counting ...................................................... Passed 0.23 sec +133/407 Test #144: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.19 sec test 152 - Start 152: test_demo_dox_index_iterator + Start 152: test_demo_dox_misc_enumerate_strings -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: 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" 152: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 152: Test timeout computed to be: 10000000 test 153 - Start 153: test_demo_dox_index_iterator_short + Start 153: test_demo_dox_misc_name_store_cache -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: 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" 153: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 153: Test timeout computed to be: 10000000 -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+)?") -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+)?") -112/414 Test #124: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.38 sec -113/414 Test #127: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.34 sec -114/414 Test #131: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.31 sec -115/414 Test #135: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.24 sec -116/414 Test #138: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.21 sec -117/414 Test #141: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.15 sec +147: Return code was 0. +147: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout", "None". +147: Standard output was as expected. +147: Standard error was as expected. +145: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator. +145: Return code was 0. +145: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp.stdout", "None". +145: Standard output was as expected. +145: 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+)?") +61: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +61: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +134/407 Test #147: test_demo_dox_index_length_countSequences ......................................... Passed 0.17 sec test 154 - Start 154: test_demo_dox_index_length_countSequences + Start 154: test_demo_dox_modifier_cyclic_shape -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: 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" 154: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 154: Test timeout computed to be: 10000000 +73: .................................................................................................... +73: test_map_map OK +73: ************************************** +73: Total Tests: 1 +73: Skipped: 0 +73: Errors: 0 +73: ************************************** +135/407 Test #73: test_test_map ..................................................................... Passed 3.03 sec +136/407 Test #145: test_demo_dox_index_iterator ...................................................... Passed 0.24 sec test 155 - Start 155: test_demo_dox_index_mummy + Start 155: test_demo_dox_modifier_modified_string -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: 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" 155: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 155: Test timeout computed to be: 10000000 test 156 - Start 156: test_demo_dox_index_open_save + Start 156: test_demo_dox_modifier_modified_string_mod_view -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: 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" 156: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 156: Test timeout computed to be: 10000000 +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_textAt_indexText_saAt_indexRequire. +80: test_pipe_test_mapper OK +146: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. +146: Return code was 0. +146: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout", "None". +146: Standard output was as expected. +146: Standard error was as expected. +60: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > 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+)?") +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+)?") +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+)?") +137/407 Test #146: test_demo_dox_index_iterator_short ................................................ Passed 0.28 sec test 157 - Start 157: test_demo_dox_index_sufarray + Start 157: test_demo_dox_modifier_modified_string_nested -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: 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_nested" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.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 +151: Return code was 0. +151: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout", "None". +151: Standard output was as expected. +151: Standard error was as expected. +150: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray. +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+)?") +108: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK +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+)?") +150: Return code was 0. +150: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout", "None". +150: Standard output was as expected. +150: Standard error was as expected. +138/407 Test #151: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.19 sec test 158 - Start 158: test_demo_dox_index_textAt_indexText_saAt_indexRequire + Start 158: test_demo_dox_parallel_queue_example -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: 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_queue_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.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 +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+)?") +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+)?") +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+)?") +152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. +139/407 Test #150: test_demo_dox_index_sufarray ...................................................... Passed 0.23 sec test 159 - Start 159: test_demo_dox_misc_enumerate_strings + Start 159: test_demo_dox_parallel_splitter_example -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: 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" 159: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 159: Test timeout computed to be: 10000000 -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. -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. -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. -20: test_align_parallel_wavefront_multiple_global_alignment_simd OK -20: ************************************** -20: Total Tests: 3 -20: Skipped: 0 -20: Errors: 0 -20: ************************************** -118/414 Test #20: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 1.60 sec -119/414 Test #123: test_demo_dox_align_gaps_example .................................................. Passed 0.43 sec -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > 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 -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > 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+)?") -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. +156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. +152: Return code was 0. +152: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout", "None". +152: Standard output was as expected. +152: Standard error was as expected. +156: Return code was 0. +156: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout", "None". +156: Standard output was as expected. +156: Standard error was as expected. +153: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache. +155: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. +148: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy. +154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. +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: Return code was 0. +155: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout", "None". +155: Standard output was as expected. +155: Standard error was as expected. +78: stop reader #3 24888 +78: stop reader #2 31997 +78: stop reader #1 43115 +78: throughput: 233661 values/s +78: cap: 30 +78: test_parallel_queue_spmc_fixedsize OK +140/407 Test #156: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.18 sec +153: Return code was 0. +153: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout", "None". test 160 - Start 160: test_demo_dox_misc_name_store_cache + Start 160: test_demo_dox_score_score -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: 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" 160: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 160: Test timeout computed to be: 10000000 +153: Standard output was as expected. +153: Standard error was as expected. +78: threads: 4 +78: writers: 1 +141/407 Test #152: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.28 sec +148: Return code was 0. +148: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout", "None". +148: Standard output was as expected. +148: Standard error was as expected. +154: Return code was 0. +154: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout", "None". +154: Standard output was as expected. +154: Standard error was as expected. test 161 - Start 161: test_demo_dox_modifier_cyclic_shape + Start 161: test_demo_dox_seeds_seeds_chaining -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: 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_seeds_seeds_chaining" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.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 -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -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+)?") -134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. -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. -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. -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+)?") -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -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+)?") -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+)?") -120/414 Test #137: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.30 sec -121/414 Test #142: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.24 sec +142/407 Test #155: test_demo_dox_modifier_modified_string ............................................ Passed 0.24 sec test 162 - Start 162: test_demo_dox_modifier_modified_string + Start 162: test_demo_dox_seeds_seeds_extension -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: 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_seeds_seeds_extension" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.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 +149: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. +143/407 Test #153: test_demo_dox_misc_name_store_cache ............................................... Passed 0.30 sec +144/407 Test #154: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.28 sec test 163 - Start 163: test_demo_dox_modifier_modified_string_mod_view + Start 163: test_demo_dox_seq_io_fai_index_example -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: 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_seq_io_fai_index_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.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 -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. -122/414 Test #134: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.36 sec -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. -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. -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+)?") -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+)?") -106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -114: test_store_io_sam2 OK -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. -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+)?") test 164 - Start 164: test_demo_dox_modifier_modified_string_nested + Start 164: test_demo_dox_sequence_container_view_zip -164: 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_nested" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout" +164: 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" 164: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 164: Test timeout computed to be: 10000000 -147: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra. -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. -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. -123/414 Test #143: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.22 sec +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+)?") +149: Return code was 0. +149: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout", "None". +149: Standard output was as expected. +149: 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+)?") +157: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested. +145/407 Test #148: test_demo_dox_index_mummy ......................................................... Passed 0.42 sec test 165 - Start 165: test_demo_dox_parallel_queue_example + Start 165: test_demo_dox_sequence_string2 -165: 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_queue_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout" +165: 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_string2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout" 165: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 165: Test timeout computed to be: 10000000 -133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. -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. -124/414 Test #146: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.21 sec -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+)?") -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+)?") -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 -125/414 Test #145: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.22 sec -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -126/414 Test #150: test_demo_dox_index_finder ........................................................ Passed 0.17 sec -127/414 Test #139: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.33 sec -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+)?") +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: Return code was 0. +157: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout", "None". +157: Standard output was as expected. +157: Standard error was as expected. +146/407 Test #149: test_demo_dox_index_open_save ..................................................... Passed 0.42 sec test 166 - Start 166: test_demo_dox_parallel_splitter_example + Start 166: test_demo_dox_sequence_stringset -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: 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" 166: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 166: Test timeout computed to be: 10000000 +160: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. +160: Return code was 0. +160: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout", "None". +160: Standard output was as expected. +160: Standard error was as expected. +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+)?") +147/407 Test #157: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.27 sec test 167 - Start 167: test_demo_dox_score_score + Start 167: test_demo_dox_stream_lexical_cast -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: 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_stream_lexical_cast" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.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 +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+)?") +158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. +148/407 Test #160: test_demo_dox_score_score ......................................................... Passed 0.14 sec test 168 - Start 168: test_demo_dox_seeds_seeds_chaining + Start 168: test_demo_howto_align_gaps_clipping -168: 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_seeds_seeds_chaining" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout" +168: 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_align_gaps_clipping" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout" 168: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 168: 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+)?") +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+)?") +159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example. +78: stop reader #1 53981 +78: stop reader #3 30560 +78: stop reader #2 15459 +78: throughput: 631065 values/s +78: cap: 50886 +78: test_parallel_queue_spmc_dynamicsize OK +78: threads: 3 +78: writers: 2 +161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. +163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. +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+)?") +159: Return code was 0. +159: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout", "None". +159: Standard output was as expected. +159: Standard error was as expected. +158: Return code was 0. +158: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout", "None". +158: Standard output was as expected. +158: Standard error was as expected. +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+)?") +163: Return code was 0. +163: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout", "None". +163: Standard output was as expected. +163: Standard error was as expected. +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+)?") +164: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip. +161: Return code was 0. +161: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout", "None". +161: Standard output was as expected. +161: 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+)?") +162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_extension. +168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_align_gaps_clipping. +149/407 Test #158: test_demo_dox_parallel_queue_example .............................................. Passed 0.31 sec test 169 - Start 169: test_demo_dox_seeds_seeds_extension + Start 169: test_demo_howto_custom_file_endings -169: 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_seeds_seeds_extension" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp.stdout" +169: 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" 169: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 169: Test timeout computed to be: 10000000 -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. -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+)?") -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+)?") -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > 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. -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+)?") -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > 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. -115: FileStreamTest_ReadLarge type parameter seqan::Async OK -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+)?") -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -151: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. -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. -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. -128/414 Test #133: test_demo_dox_find_finder_online .................................................. Passed 0.44 sec -129/414 Test #140: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.37 sec -130/414 Test #147: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.24 sec +162: Return code was 0. +162: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp.stdout", "None". +162: Standard output was as expected. +162: Standard error was as expected. +164: Return code was 0. +164: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp.stdout", "None". +164: Standard output was as expected. +164: Standard error was as expected. +150/407 Test #161: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.21 sec +151/407 Test #163: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.18 sec test 170 - Start 170: test_demo_dox_seq_io_fai_index_example + Start 170: test_demo_howto_filter_similar_sequences -170: 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_seq_io_fai_index_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout" +170: 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_filter_similar_sequences" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr" 170: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 170: Test timeout computed to be: 10000000 test 171 - Start 171: test_demo_dox_sequence_container_view_zip + Start 171: test_demo_howto_scores_init_score -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: 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" 171: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 171: Test timeout computed to be: 10000000 +165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2. +165: Return code was 0. +168: Return code was 0. +168: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout", "None". +168: Standard output was as expected. +168: Standard error was as expected. +167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_stream_lexical_cast. +152/407 Test #159: test_demo_dox_parallel_splitter_example ........................................... Passed 0.33 sec +153/407 Test #162: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.23 sec +154/407 Test #164: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.20 sec +155/407 Test #168: test_demo_howto_align_gaps_clipping ............................................... Passed 0.12 sec +165: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout", "None". +165: Standard output was as expected. +165: Standard error was as expected. test 172 - Start 172: test_demo_dox_sequence_string2 + Start 172: test_demo_howto_scores_load_score -172: 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_string2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout" +172: 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_load_score" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout" 172: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 172: Test timeout computed to be: 10000000 -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+)?") -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+)?") -106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -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. -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+)?") -153: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. -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. -84: test_parallel_atomic_xor OK -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+)?") -154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. -131/414 Test #144: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.32 sec -132/414 Test #148: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.28 sec -133/414 Test #149: test_demo_dox_index_counting ...................................................... Passed 0.27 sec -134/414 Test #155: test_demo_dox_index_mummy ......................................................... Passed 0.22 sec test 173 - Start 173: test_demo_dox_sequence_stringset + Start 173: test_demo_tutorial_a_first_example_basic_code -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: 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_basic_code" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.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 test 174 - Start 174: test_demo_dox_stream_lexical_cast + Start 174: test_demo_tutorial_a_first_example_basic_code_detailed -174: 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_stream_lexical_cast" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp.stdout" +174: 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_basic_code_detailed" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout" 174: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 174: Test timeout computed to be: 10000000 test 175 - Start 175: test_demo_howto_align_gaps_clipping + Start 175: test_demo_tutorial_a_first_example_code_encapsulation -175: 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_align_gaps_clipping" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout" +175: 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_code_encapsulation" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout" 175: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 175: Test timeout computed to be: 10000000 +166: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset. +166: Return code was 0. +166: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp.stdout", "None". +166: Standard output was as expected. +166: Standard error was as expected. +167: Return code was 0. +167: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp.stdout", "None". +167: Standard output was as expected. +167: 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+)?") +169: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_custom_file_endings. +63: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +63: ************************************** +63: Total Tests: 14 +63: Skipped: 0 +63: Errors: 0 +63: ************************************** +156/407 Test #63: test_test_index_vstree ............................................................ Passed 3.74 sec +157/407 Test #165: test_demo_dox_sequence_string2 .................................................... Passed 0.24 sec +158/407 Test #166: test_demo_dox_sequence_stringset .................................................. Passed 0.22 sec +159/407 Test #167: test_demo_dox_stream_lexical_cast ................................................. Passed 0.19 sec test 176 - Start 176: test_demo_howto_custom_file_endings + Start 176: test_demo_tutorial_a_first_example_final_result -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: 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_final_result" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.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 -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. -158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire. -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. -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 -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 -161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. -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+)?") -135/414 Test #151: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.28 sec -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. test 177 - Start 177: test_demo_howto_filter_similar_sequences + Start 177: test_demo_tutorial_a_first_example_solution_1 -177: 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_filter_similar_sequences" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr" +177: 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" 177: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 177: Test timeout computed to be: 10000000 -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+)?") -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+)?") -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. -156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. -159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. -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+)?") -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, 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 >, 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 -152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator. -136/414 Test #160: test_demo_dox_misc_name_store_cache ............................................... Passed 0.23 sec -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 test 178 - Start 178: test_demo_howto_scores_init_score + Start 178: test_demo_tutorial_a_first_example_solution_2 -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: 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" 178: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 178: Test timeout computed to be: 10000000 -106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. -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. -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. -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 -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. -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. -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. -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. -137/414 Test #153: test_demo_dox_index_iterator_short ................................................ Passed 0.31 sec -138/414 Test #161: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.22 sec test 179 - Start 179: test_demo_howto_scores_load_score + Start 179: test_demo_tutorial_a_first_example_solution_3 -179: 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_load_score" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout" +179: 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_3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout" 179: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 179: Test timeout computed to be: 10000000 +169: Return code was 0. +169: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp.stdout", "None". +169: Standard output was as expected. +169: Standard error was as expected. +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_howto_filter_similar_sequences. +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+)?") +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+)?") +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+)?") +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+)?") +160/407 Test #169: test_demo_howto_custom_file_endings ............................................... Passed 0.17 sec test 180 - Start 180: test_demo_tutorial_a_first_example_basic_code + Start 180: test_demo_tutorial_a_first_example_solution_4 -180: 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_basic_code" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout" +180: 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" 180: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 180: Test timeout computed to be: 10000000 -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > 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 -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+)?") -167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. -162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. -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+)?") -168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. -118: test_translation_stringset_multiframe_parallel OK -139/414 Test #154: test_demo_dox_index_length_countSequences ......................................... Passed 0.32 sec -140/414 Test #156: test_demo_dox_index_open_save ..................................................... Passed 0.30 sec -141/414 Test #158: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.28 sec -142/414 Test #171: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.13 sec +173: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code. +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+)?") +170: Return code was 0. +170: 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". +170: Standard output was as expected. +170: Standard error was as expected. +172: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_load_score. +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+)?") +173: Return code was 0. +173: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout", "None". +173: Standard output was as expected. +173: Standard error was as expected. +161/407 Test #170: test_demo_howto_filter_similar_sequences .......................................... Passed 0.20 sec +172: Return code was 0. +172: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout", "None". +172: Standard output was as expected. +172: Standard error was as expected. test 181 - Start 181: test_demo_tutorial_a_first_example_basic_code_detailed + Start 181: test_demo_tutorial_a_first_example_solution_5 -181: 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_basic_code_detailed" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout" +181: 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_5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout" 181: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 181: Test timeout computed to be: 10000000 +174: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code_detailed. +175: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_code_encapsulation. +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+)?") +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+)?") +174: Return code was 0. +174: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout", "None". +174: Standard output was as expected. +174: Standard error was as expected. +162/407 Test #172: test_demo_howto_scores_load_score ................................................. Passed 0.19 sec +163/407 Test #173: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.17 sec test 182 - Start 182: test_demo_tutorial_a_first_example_code_encapsulation + Start 182: test_demo_tutorial_a_first_example_solution_6 -182: 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_code_encapsulation" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout" +182: 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_6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout" 182: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 182: Test timeout computed to be: 10000000 test 183 - Start 183: test_demo_tutorial_a_first_example_final_result + Start 183: test_demo_tutorial_alignment_align -183: 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_final_result" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout" +183: 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_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout" 183: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 183: Test timeout computed to be: 10000000 +61: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +171: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score. +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+)?") +175: Return code was 0. +175: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout", "None". +175: Standard output was as expected. +175: Standard error was as expected. +176: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result. +164/407 Test #174: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.19 sec +165/407 Test #175: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 0.18 sec test 184 - Start 184: test_demo_tutorial_a_first_example_solution_1 + Start 184: test_demo_tutorial_alignment_align_assignment1 -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: 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_align_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.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 -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+)?") -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. -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 -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 -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 -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. -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+)?") -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. -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+)?") -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. -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+)?") -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -143/414 Test #152: test_demo_dox_index_iterator ...................................................... Passed 0.38 sec -144/414 Test #157: test_demo_dox_index_sufarray ...................................................... Passed 0.33 sec -145/414 Test #159: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.33 sec -146/414 Test #162: test_demo_dox_modifier_modified_string ............................................ Passed 0.27 sec -147/414 Test #163: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.27 sec -148/414 Test #167: test_demo_dox_score_score ......................................................... Passed 0.21 sec -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 -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. -149/414 Test #168: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.23 sec -150/414 Test #164: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.28 sec -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+)?") test 185 - Start 185: test_demo_tutorial_a_first_example_solution_2 + Start 185: test_demo_tutorial_alignment_graph -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: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.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 +108: FileStreamTest_WriteLarge type parameter seqan::Async OK +60: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +60: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +60: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +60: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +60: IndexTest_OpenSave type parameter seqan::Index >, seqan::FMIndex > > OK +171: Return code was 0. +171: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout", "None". +171: Standard output was as expected. +171: Standard error was as expected. +176: Return code was 0. +176: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout", "None". +176: Standard output was as expected. +176: Standard error was as expected. +177: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1. +177: Return code was 0. +177: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp.stdout", "None". +177: Standard output was as expected. +177: Standard error was as expected. +78: stop reader #2 100000 +78: throughput: 296965 values/s +78: cap: 30 +78: test_parallel_queue_mpsc_fixedsize OK +78: test_parallel_thread_pool_construct OK +78: test_parallel_thread_pool_spawn OK +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+)?") +18: test_alignment_free_alignment_free_comparison OK +18: test_alignment_free_count_kmers OK +18: test_alignment_free_calculate_periodicity OK +18: test_alignment_free_calculate_overlap_indicator OK +18: test_alignment_free_string_to_string_set OK +18: test_alignment_free_cut_ns OK +18: ************************************** +18: Total Tests: 14 +18: Skipped: 0 +18: Errors: 0 +18: ************************************** +179: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_3. +178: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2. +166/407 Test #18: test_test_alignment_free .......................................................... Passed 4.20 sec +167/407 Test #171: test_demo_howto_scores_init_score ................................................. Passed 0.29 sec +168/407 Test #176: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.22 sec test 186 - Start 186: test_demo_tutorial_a_first_example_solution_3 + Start 186: test_demo_tutorial_alignment_graph_assignment1 -186: 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_3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout" +186: 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" 186: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 186: Test timeout computed to be: 10000000 test 187 - Start 187: test_demo_tutorial_a_first_example_solution_4 + Start 187: test_demo_tutorial_alignment_scoring_scheme_affine_dgs -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: 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" 187: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 187: Test timeout computed to be: 10000000 test 188 - Start 188: test_demo_tutorial_a_first_example_solution_5 + Start 188: test_demo_tutorial_alignment_scoring_scheme_matrix -188: 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_5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout" +188: 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_matrix" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout" 188: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 188: Test timeout computed to be: 10000000 +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_solution_6. +179: Return code was 0. +179: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout", "None". +179: Standard output was as expected. +179: Standard error was as expected. +178: Return code was 0. +178: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout", "None". +178: Standard output was as expected. +178: Standard error was as expected. +169/407 Test #179: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.23 sec test 189 - Start 189: test_demo_tutorial_a_first_example_solution_6 + Start 189: test_demo_tutorial_alignment_scoring_scheme_simple -189: 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_6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout" +189: 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" 189: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 189: Test timeout computed to be: 10000000 +170/407 Test #178: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 0.26 sec +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+)?") +171/407 Test #177: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.28 sec test 190 - Start 190: test_demo_tutorial_alignment_align + Start 190: test_demo_tutorial_alphabets_assignment_1 -190: 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_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout" +190: 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" 190: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 190: Test timeout computed to be: 10000000 -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. -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. -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 -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 -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 -151/414 Test #172: test_demo_dox_sequence_string2 .................................................... Passed 0.25 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. -175: Standard error was as expected. test 191 - Start 191: test_demo_tutorial_alignment_align_assignment1 + Start 191: test_demo_tutorial_alphabets_assignment_1_solution -191: 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_align_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout" +191: 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" 191: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 191: Test timeout computed to be: 10000000 +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+)?") +180: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_4. +180: Return code was 0. +180: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout", "None". +180: Standard output was as expected. +180: Standard error was as expected. +182: Return code was 0. +182: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout", "None". +182: Standard output was as expected. +182: 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+)?") +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+)?") +184: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align_assignment1. +184: Return code was 0. +184: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout", "None". +184: Standard output was as expected. +184: Standard error was as expected. +172/407 Test #180: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 0.27 sec +173/407 Test #182: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 0.21 sec test 192 - Start 192: test_demo_tutorial_alignment_graph + Start 192: test_demo_tutorial_alphabets_example_bitsPerValue -192: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout" +192: 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" 192: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 192: Test timeout computed to be: 10000000 -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. -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. -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+)?") -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+)?") -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. -114: test_store_io_split_sam OK -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+)?") -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. -170: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. -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. -165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > 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+)?") -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 test 193 - Start 193: test_demo_tutorial_alignment_graph_assignment1 + Start 193: test_demo_tutorial_alphabets_example_ordValue -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: 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_ordValue" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.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 -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+)?") 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+)?") -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. -152/414 Test #182: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 0.15 sec -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 +183: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align. +183: Return code was 0. +183: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout", "None". +183: Standard output was as expected. +183: Standard error was as expected. +186: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1. +186: Return code was 0. +186: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout", "None". +186: Standard output was as expected. +186: Standard error was as expected. +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+)?") +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+)?") +185: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph. +181: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5. +174/407 Test #184: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 0.21 sec test 194 - Start 194: test_demo_tutorial_alignment_scoring_scheme_affine_dgs + Start 194: test_demo_tutorial_alphabets_example_size -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: 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_size" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.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 -84: test_parallel_atomic_cas OK -153/414 Test #181: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.18 sec -154/414 Test #175: test_demo_howto_align_gaps_clipping ............................................... Passed 0.25 sec -155/414 Test #166: test_demo_dox_parallel_splitter_example ........................................... Passed 0.35 sec -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. -156/414 Test #174: test_demo_dox_stream_lexical_cast ................................................. Passed 0.26 sec -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: ************************************** +181: Return code was 0. +181: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout", "None". +181: Standard output was as expected. +181: Standard error was as expected. +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+)?") +185: Return code was 0. +185: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout", "None". +185: Standard output was as expected. +185: Standard error was as expected. +175/407 Test #183: test_demo_tutorial_alignment_align ................................................ Passed 0.25 sec +176/407 Test #186: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 0.18 sec test 195 - Start 195: test_demo_tutorial_alignment_scoring_scheme_matrix + Start 195: test_demo_tutorial_background_and_motivation_example -195: 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_matrix" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout" +195: 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_background_and_motivation_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout" 195: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 195: Test timeout computed to be: 10000000 test 196 - Start 196: test_demo_tutorial_alignment_scoring_scheme_simple + Start 196: test_demo_tutorial_basic_techniques_base -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: 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" 196: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 196: Test timeout computed to be: 10000000 +188: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_matrix. +188: Return code was 0. +188: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout", "None". +188: Standard output was as expected. +188: 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+)?") +187: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs. +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+)?") +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+)?") +177/407 Test #181: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 0.33 sec +178/407 Test #185: test_demo_tutorial_alignment_graph ................................................ Passed 0.24 sec +179/407 Test #188: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 0.18 sec test 197 - Start 197: test_demo_tutorial_alphabets_assignment_1 + Start 197: test_demo_tutorial_basics_allocator -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: 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_basics_allocator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.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 + Start 198: test_demo_tutorial_basics_base -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: 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_basics_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.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 -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. -157/414 Test #106: test_test_sequence_v2 ............................................................. Passed 1.18 sec -158/414 Test #169: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.38 sec -159/414 Test #177: test_demo_howto_filter_similar_sequences .......................................... Passed 0.28 sec test 199 - Start 199: test_demo_tutorial_alphabets_example_bitsPerValue + Start 199: test_demo_tutorial_basics_show_alphabets -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: 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_basics_show_alphabets" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.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 +187: Return code was 0. +187: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout", "None". +187: Standard output was as expected. +187: Standard error was as expected. +189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple. +189: Return code was 0. +189: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout", "None". +189: Standard output was as expected. +189: Standard error was as expected. +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+)?") +191: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution. +191: Return code was 0. +191: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout", "None". +191: Standard output was as expected. +191: 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+)?") +190: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1. +194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_size. +180/407 Test #187: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 0.24 sec +181/407 Test #191: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 0.16 sec test 200 - Start 200: test_demo_tutorial_alphabets_example_ordValue + Start 200: test_demo_tutorial_basics_strings -200: 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_ordValue" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.cpp.stdout" +200: 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_basics_strings" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout" 200: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 200: Test timeout computed to be: 10000000 test 201 - Start 201: test_demo_tutorial_alphabets_example_size + Start 201: test_demo_tutorial_bed_io_base -201: 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_size" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout" +201: 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" 201: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 201: Test timeout computed to be: 10000000 -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. -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. -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. -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. -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. -160/414 Test #165: test_demo_dox_parallel_queue_example .............................................. Passed 0.46 sec -173: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset. -173: Return code was 0. -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. -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. -161/414 Test #170: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.41 sec -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+)?") +190: Return code was 0. +190: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout", "None". +190: Standard output was as expected. +190: 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+)?") +192: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue. +194: Return code was 0. +194: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout", "None". +194: Standard output was as expected. +194: 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+)?") +182/407 Test #189: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 0.22 sec +183/407 Test #190: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 0.21 sec test 202 - Start 202: test_demo_tutorial_background_and_motivation_example + Start 202: test_demo_tutorial_bed_io_example1 -202: 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_background_and_motivation_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout" +202: 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" 202: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 202: Test timeout computed to be: 10000000 test 203 - Start 203: test_demo_tutorial_basic_techniques_base + Start 203: test_demo_tutorial_bed_io_solution1 -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: 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" 203: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 203: 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. -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. -115: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK -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+)?") -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+)?") -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+)?") -162/414 Test #173: test_demo_dox_sequence_stringset .................................................. Passed 0.37 sec -163/414 Test #176: test_demo_howto_custom_file_endings ............................................... Passed 0.35 sec -164/414 Test #178: test_demo_howto_scores_init_score ................................................. Passed 0.33 sec -165/414 Test #185: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 0.21 sec +193: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_ordValue. +193: Return code was 0. +193: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.cpp.stdout", "None". +193: Standard output was as expected. +193: Standard error was as expected. +192: Return code was 0. +192: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout", "None". +192: Standard output was as expected. +192: Standard error was as expected. +196: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base. +196: Return code was 0. +196: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout", "None". +196: Standard output was as expected. +196: Standard error was as expected. +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+)?") +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+)?") +195: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_background_and_motivation_example. +184/407 Test #192: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 0.21 sec +185/407 Test #193: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 0.20 sec +186/407 Test #194: test_demo_tutorial_alphabets_example_size ......................................... Passed 0.18 sec +187/407 Test #196: test_demo_tutorial_basic_techniques_base .......................................... Passed 0.14 sec +80: test_pipe_test_mapper_partially_filled OK +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+)?") test 204 - Start 204: test_demo_tutorial_basics_allocator + Start 204: test_demo_tutorial_bed_io_solution2 -204: 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_basics_allocator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout" +204: 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" 204: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 204: Test timeout computed to be: 10000000 test 205 - Start 205: test_demo_tutorial_basics_base + Start 205: test_demo_tutorial_bed_io_solution3 -205: 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_basics_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout" +205: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout" 205: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 205: Test timeout computed to be: 10000000 test 206 - Start 206: test_demo_tutorial_basics_show_alphabets + Start 206: test_demo_tutorial_blast_io_read_assignment -206: 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_basics_show_alphabets" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout" +206: 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_read_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr" 206: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 206: Test timeout computed to be: 10000000 test 207 - Start 207: test_demo_tutorial_basics_strings + Start 207: test_demo_tutorial_blast_io_write_assignment -207: 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_basics_strings" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout" +207: 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" 207: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 207: Test timeout computed to be: 10000000 -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+)?") -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. -190: Return code was 0. -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. -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+)?") -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. -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+)?") -193: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1. -193: Return code was 0. -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. -184: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1. -184: Return code was 0. -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. -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+)?") -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. -189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_6. -166/414 Test #179: test_demo_howto_scores_load_score ................................................. Passed 0.36 sec -167/414 Test #180: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.35 sec -168/414 Test #183: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.31 sec -169/414 Test #187: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 0.24 sec -170/414 Test #190: test_demo_tutorial_alignment_align ................................................ Passed 0.22 sec -171/414 Test #193: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 0.19 sec +199: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_show_alphabets. +199: Return code was 0. +199: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout", "None". +199: Standard output was as expected. +199: 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_basics_strings. +200: Return code was 0. +200: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout", "None". +200: Standard output was as expected. +200: Standard error was as expected. +197: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout", "None". 195: Standard output was as expected. 195: Standard error was as expected. -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. +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+)?") +198: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base. +198: Return code was 0. +198: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout", "None". +198: Standard output was as expected. +198: Standard error was as expected. +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+)?") +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+)?") +188/407 Test #195: test_demo_tutorial_background_and_motivation_example .............................. Passed 0.24 sec test 208 - Start 208: test_demo_tutorial_bed_io_base + Start 208: test_demo_tutorial_consensus_alignment_with_positions -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: 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_consensus_alignment_with_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.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 +189/407 Test #198: test_demo_tutorial_basics_base .................................................... Passed 0.20 sec test 209 - Start 209: test_demo_tutorial_bed_io_example1 + Start 209: test_demo_tutorial_consensus_alignment_without_positions -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: 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_consensus_alignment_without_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.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 +201: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base. +201: Return code was 0. +201: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout", "None". +201: Standard output was as expected. +201: Standard error was as expected. +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+)?") +202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. +190/407 Test #199: test_demo_tutorial_basics_show_alphabets .......................................... Passed 0.22 sec +191/407 Test #200: test_demo_tutorial_basics_strings ................................................. Passed 0.21 sec +192/407 Test #201: test_demo_tutorial_bed_io_base .................................................... Passed 0.19 sec test 210 - Start 210: test_demo_tutorial_bed_io_solution1 + Start 210: test_demo_tutorial_file_io_overview_example1 -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: 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" 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 + Start 211: test_demo_tutorial_file_io_overview_solution1 -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: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.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 + Start 212: test_demo_tutorial_file_io_overview_solution2 -212: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout" +212: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout" 212: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 212: Test timeout computed to be: 10000000 -test 213 - Start 213: test_demo_tutorial_blast_io_read_assignment - -213: 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_read_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr" -213: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -213: Test timeout computed to be: 10000000 -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -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. -191: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align_assignment1. -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. -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. -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. -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+)?") -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, 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+)?") +203: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1. +203: Return code was 0. +203: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout", "None". +203: Standard output was as expected. +203: 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+)?") +202: Return code was 0. +202: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout", "None". +202: Standard output was as expected. +202: 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+)?") -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. -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+)?") -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+)?") +204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2. 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+)?") -114: test_store_io_read_bam OK -114: ************************************** -114: Total Tests: 14 -114: Skipped: 0 -114: Errors: 0 -114: ************************************** -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -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+)?") -172/414 Test #184: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.38 sec -173/414 Test #188: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 0.31 sec -174/414 Test #189: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 0.30 sec -175/414 Test #191: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 0.28 sec -176/414 Test #192: test_demo_tutorial_alignment_graph ................................................ Passed 0.27 sec -177/414 Test #195: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 0.24 sec -178/414 Test #196: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 0.22 sec -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. -84: test_parallel_atomic_min OK +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+)?") +193/407 Test #202: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.22 sec +194/407 Test #203: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.20 sec +test 213 + Start 213: test_demo_tutorial_file_io_overview_solution3 + +213: 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" +213: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +213: Test timeout computed to be: 10000000 test 214 - Start 214: test_demo_tutorial_blast_io_write_assignment + Start 214: test_demo_tutorial_fragment_store_access_aligned_reads -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: 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_access_aligned_reads" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout" 214: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 214: Test timeout computed to be: 10000000 +206: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment. +206: Return code was 0. +206: 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". +206: Standard output was as expected. +206: Standard error was as expected. +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+)?") +205: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution3. +204: Return code was 0. +204: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout", "None". +204: Standard output was as expected. +204: 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+)?") +207: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment. +210: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. +208: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions. +108: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK +195/407 Test #204: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.21 sec test 215 - Start 215: test_demo_tutorial_consensus_alignment_with_positions + Start 215: test_demo_tutorial_fragment_store_access_aligned_reads2 -215: 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_consensus_alignment_with_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout" +215: 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_access_aligned_reads2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout" 215: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 215: Test timeout computed to be: 10000000 +205: Return code was 0. +205: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout", "None". +205: Standard output was as expected. +205: Standard error was as expected. +61: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +207: Return code was 0. +207: 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". +207: Standard output was as expected. +207: Standard error was as expected. +196/407 Test #206: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.20 sec test 216 - Start 216: test_demo_tutorial_consensus_alignment_without_positions + Start 216: test_demo_tutorial_fragment_store_base -216: 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_consensus_alignment_without_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout" +216: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout" 216: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 216: Test timeout computed to be: 10000000 +208: Return code was 0. +208: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout", "None". +208: Standard output was as expected. +208: Standard error was as expected. +209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions. +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+)?") +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+)?") +197/407 Test #205: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.26 sec +198/407 Test #207: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.21 sec +60: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK test 217 - Start 217: test_demo_tutorial_file_io_overview_example1 + Start 217: test_demo_tutorial_fragment_store_display_aligned_reads -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: 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" 217: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 217: Test timeout computed to be: 10000000 test 218 - Start 218: test_demo_tutorial_file_io_overview_solution1 + Start 218: test_demo_tutorial_generic_programming_example_hashing -218: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout" +218: 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" 218: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 218: Test timeout computed to be: 10000000 +209: Return code was 0. +209: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout", "None". +209: Standard output was as expected. +209: Standard error was as expected. +199/407 Test #208: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.23 sec test 219 - Start 219: test_demo_tutorial_file_io_overview_solution2 + Start 219: test_demo_tutorial_generic_programming_template_subclassing -219: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout" +219: 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_template_subclassing" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout" 219: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 219: Test timeout computed to be: 10000000 +210: Return code was 0. +210: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout", "None". +210: Standard output was as expected. +210: Standard error was as expected. +200/407 Test #209: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.23 sec test 220 - Start 220: test_demo_tutorial_file_io_overview_solution3 + Start 220: test_demo_tutorial_genome_annotations_assignment_1_hint -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: 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_hint" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.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 -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 -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. -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 -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. -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. -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. -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+)?") -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+)?") -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+)?") -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -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+)?") -204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator. -179/414 Test #114: test_test_store ................................................................... Passed 1.38 sec -180/414 Test #199: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 0.26 sec -181/414 Test #200: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 0.23 sec -182/414 Test #206: test_demo_tutorial_basics_show_alphabets .......................................... Passed 0.17 sec -183/414 Test #207: test_demo_tutorial_basics_strings ................................................. Passed 0.16 sec -184/414 Test #203: test_demo_tutorial_basic_techniques_base .......................................... Passed 0.21 sec -202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_background_and_motivation_example. +211: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. +201/407 Test #210: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 0.24 sec test 221 - Start 221: test_demo_tutorial_fragment_store_access_aligned_reads + Start 221: test_demo_tutorial_genome_annotations_assignment_1_solution -221: 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_access_aligned_reads" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout" +221: 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" 221: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 221: Test timeout computed to be: 10000000 +212: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. +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+)?") +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+)?") +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+)?") +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+)?") +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+)?") +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+)?") +215: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads2. +219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_template_subclassing. +219: Return code was 0. +219: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout", "None". +219: Standard output was as expected. +219: 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+)?") +202/407 Test #219: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.13 sec test 222 - Start 222: test_demo_tutorial_fragment_store_access_aligned_reads2 + Start 222: test_demo_tutorial_genome_annotations_assignment_2_solution -222: 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_access_aligned_reads2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout" +222: 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_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout" 222: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 222: Test timeout computed to be: 10000000 +197: Return code was 0. +197: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout", "None". +197: Standard output was as expected. +197: Standard error was as expected. +213: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3. +216: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_base. +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+)?") +214: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. +217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads. +216: Return code was 0. +216: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout", "None". +216: Standard output was as expected. +216: Standard error was as expected. +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+)?") +211: Return code was 0. +211: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout", "None". +211: Standard output was as expected. +211: Standard error was as expected. +203/407 Test #197: test_demo_tutorial_basics_allocator ............................................... Passed 0.61 sec test 223 - Start 223: test_demo_tutorial_fragment_store_base + Start 223: test_demo_tutorial_genome_annotations_assignment_3_solution -223: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout" +223: 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" 223: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 223: Test timeout computed to be: 10000000 +220: 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+)?") +215: Return code was 0. +215: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout", "None". +215: Standard output was as expected. +215: Standard error was as expected. +204/407 Test #211: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.37 sec +205/407 Test #216: test_demo_tutorial_fragment_store_base ............................................ Passed 0.25 sec +220: Return code was 0. +220: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout", "None". +220: Standard output was as expected. +220: Standard error was as expected. +212: Return code was 0. +212: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout", "None". +212: Standard output was as expected. +212: Standard error was as expected. test 224 - Start 224: test_demo_tutorial_fragment_store_display_aligned_reads + Start 224: test_demo_tutorial_genome_annotations_assignment_4_solution -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: 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_4_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.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 + Start 225: test_demo_tutorial_genome_annotations_base -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: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.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 -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. -185/414 Test #202: test_demo_tutorial_background_and_motivation_example .............................. Passed 0.28 sec +221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_solution. +221: Return code was 0. +221: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp.stdout", "None". +221: Standard output was as expected. +221: Standard error was as expected. +222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_2_solution. +222: Return code was 0. +222: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout", "None". +222: Standard output was as expected. +222: Standard error was as expected. +213: Return code was 0. +213: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp.stdout", "None". +213: Standard output was as expected. +213: Standard error was as expected. +218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing. +218: Return code was 0. +218: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout", "None". +218: Standard output was as expected. +218: Standard error was as expected. +214: Return code was 0. +214: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout", "None". +214: Standard output was as expected. +214: Standard error was as expected. +217: Return code was 0. +217: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout", "None". +217: Standard output was as expected. +217: Standard error was as expected. +206/407 Test #212: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.41 sec +207/407 Test #213: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.38 sec +208/407 Test #215: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.35 sec +209/407 Test #220: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.22 sec +210/407 Test #222: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.12 sec test 226 - Start 226: test_demo_tutorial_generic_programming_template_subclassing + Start 226: test_demo_tutorial_gff_and_gtf_io_base -226: 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_template_subclassing" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout" +226: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout" 226: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 226: Test timeout computed to be: 10000000 -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. -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. -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+)?") -71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: ************************************** -71: Total Tests: 32 -71: Skipped: 0 -71: Errors: 0 -71: ************************************** -186/414 Test #71: test_test_index_finder ............................................................ Passed 2.01 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. -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+)?") -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. -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs. test 227 - Start 227: test_demo_tutorial_genome_annotations_assignment_1_hint + Start 227: test_demo_tutorial_gff_and_gtf_io_example1 -227: 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_hint" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout" +227: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout" 227: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 227: Test timeout computed to be: 10000000 test 228 - Start 228: test_demo_tutorial_genome_annotations_assignment_1_solution + Start 228: test_demo_tutorial_gff_and_gtf_io_example2 -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: 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" 228: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 228: Test timeout computed to be: 10000000 -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+)?") -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+)?") -118: test_translation_stringset_multiframe_concatdirect_parallel OK -118: ************************************** -118: Total Tests: 10 -118: Skipped: 0 -118: Errors: 0 -118: ************************************** -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+)?") -187/414 Test #212: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.20 sec test 229 - Start 229: test_demo_tutorial_genome_annotations_assignment_2_solution + Start 229: test_demo_tutorial_gff_and_gtf_io_solution1 -229: 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_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout" +229: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout" 229: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 229: Test timeout computed to be: 10000000 -188/414 Test #118: test_translation .................................................................. Passed 1.45 sec -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. -189/414 Test #213: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.20 sec -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. -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+)?") -190/414 Test #186: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.51 sec -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. -209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. -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+)?") -211: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2. -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. -191/414 Test #215: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.17 sec -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. test 230 - Start 230: test_demo_tutorial_genome_annotations_assignment_3_solution + Start 230: test_demo_tutorial_gff_and_gtf_io_solution2 -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: 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" 230: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 230: Test timeout computed to be: 10000000 +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_genome_annotations_assignment_3_solution. +223: Return code was 0. +223: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout", "None". +223: Standard output was as expected. +223: 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_genome_annotations_assignment_4_solution. +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+)?") +211/407 Test #214: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.46 sec +212/407 Test #217: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.38 sec +213/407 Test #218: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.36 sec +214/407 Test #221: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.29 sec test 231 - Start 231: test_demo_tutorial_genome_annotations_assignment_4_solution + Start 231: test_demo_tutorial_gff_and_gtf_io_solution3 -231: 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_4_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp.stdout" +231: 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" 231: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 231: Test timeout computed to be: 10000000 test 232 - Start 232: test_demo_tutorial_genome_annotations_base + Start 232: test_demo_tutorial_graph_graph_algo_scc -232: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout" +232: 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_graph_graph_algo_scc" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout" 232: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 232: Test timeout computed to be: 10000000 test 233 - Start 233: test_demo_tutorial_gff_and_gtf_io_base + Start 233: test_demo_tutorial_graph_graph_dijkstra -233: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout" +233: 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_graph_graph_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout" 233: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 233: Test timeout computed to be: 10000000 -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. -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. -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+)?") -218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. -205: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base. -205: Return code was 0. -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. -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". -214: Standard output was as expected. -214: Standard error was as expected. -222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads2. -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. -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+)?") -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. -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+)?") -219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. -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+)?") -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+)?") -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+)?") -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+)?") -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+)?") -84: test_parallel_atomic_max OK -84: test_parallel_splitter_equidistant OK -84: test_parallel_splitting_compute_splitters OK -192/414 Test #194: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 0.50 sec -193/414 Test #197: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 0.48 sec -194/414 Test #198: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 0.47 sec -195/414 Test #209: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.34 sec -196/414 Test #210: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.32 sec -197/414 Test #211: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.30 sec -198/414 Test #214: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.27 sec -199/414 Test #228: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.11 sec -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. -217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. -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. test 234 - Start 234: test_demo_tutorial_gff_and_gtf_io_example1 + Start 234: test_demo_tutorial_graph_graph_hmm -234: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout" +234: 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_graph_graph_hmm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout" 234: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 234: Test timeout computed to be: 10000000 +225: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_base. +225: Return code was 0. +225: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout", "None". +225: Standard output was as expected. +225: Standard error was as expected. +78: test_parallel_thread_pool_join OK +224: Return code was 0. +224: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp.stdout", "None". +224: Standard output was as expected. +224: 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+)?") +226: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_base. +226: Return code was 0. +226: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout", "None". +226: Standard output was as expected. +226: 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+)?") +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+)?") +215/407 Test #223: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.24 sec +216/407 Test #224: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.21 sec +217/407 Test #225: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.19 sec test 235 - Start 235: test_demo_tutorial_gff_and_gtf_io_example2 + Start 235: test_demo_tutorial_graph_solution_1 -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: 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_graph_solution_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.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 test 236 - Start 236: test_demo_tutorial_gff_and_gtf_io_solution1 + Start 236: test_demo_tutorial_index_iterators_index_assignment1 -236: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout" +236: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout" 236: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 236: Test timeout computed to be: 10000000 test 237 - Start 237: test_demo_tutorial_gff_and_gtf_io_solution2 + Start 237: test_demo_tutorial_index_iterators_index_assignment2 -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: 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" 237: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 237: Test timeout computed to be: 10000000 +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_gff_and_gtf_io_solution2. +228: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2. +228: Return code was 0. +228: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout", "None". +228: Standard output was as expected. +228: Standard error was as expected. +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+)?") +227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example1. +227: Return code was 0. +227: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout", "None". +227: Standard output was as expected. +227: Standard error was as expected. +229: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution1. +229: Return code was 0. +229: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout", "None". +229: Standard output was as expected. +229: Standard error was as expected. +218/407 Test #226: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.22 sec test 238 - Start 238: test_demo_tutorial_gff_and_gtf_io_solution3 + Start 238: test_demo_tutorial_index_iterators_index_bidirectional_search -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: 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" 238: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 238: Test timeout computed to be: 10000000 +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+)?") +230: Return code was 0. +230: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout", "None". +230: Standard output was as expected. +230: Standard error was as expected. +231: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3. +219/407 Test #227: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.22 sec +220/407 Test #228: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.20 sec +221/407 Test #229: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.18 sec test 239 - Start 239: test_demo_tutorial_graph_graph_algo_scc + Start 239: test_demo_tutorial_index_iterators_index_preorder -239: 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_graph_graph_algo_scc" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout" +239: 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" 239: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 239: Test timeout computed to be: 10000000 test 240 - Start 240: test_demo_tutorial_graph_graph_dijkstra + Start 240: test_demo_tutorial_index_iterators_index_property_maps -240: 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_graph_graph_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout" +240: 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_property_maps" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout" 240: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 240: Test timeout computed to be: 10000000 test 241 - Start 241: test_demo_tutorial_graph_graph_hmm + Start 241: test_demo_tutorial_index_iterators_index_search -241: 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_graph_graph_hmm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout" +241: 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_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout" 241: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 241: Test timeout computed to be: 10000000 -86: test_pipe_test_mapper OK -200/414 Test #201: test_demo_tutorial_alphabets_example_size ......................................... Passed 0.63 sec -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. -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. -201/414 Test #205: test_demo_tutorial_basics_base .................................................... Passed 0.84 sec -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+)?") -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. -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: ************************************** -221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. -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. -202/414 Test #222: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.63 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. -203/414 Test #229: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.55 sec +231: Return code was 0. +231: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout", "None". +231: Standard output was as expected. +231: 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+)?") +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+)?") +232: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc. +232: Return code was 0. +232: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout", "None". +232: Standard output was as expected. +232: 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+)?") +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+)?") +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+)?") +222/407 Test #230: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.22 sec +223/407 Test #231: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.20 sec test 242 - Start 242: test_demo_tutorial_graph_solution_1 + Start 242: test_demo_tutorial_index_iterators_index_search2 -242: 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_graph_solution_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout" +242: 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_search2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout" 242: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 242: Test timeout computed to be: 10000000 test 243 - Start 243: test_demo_tutorial_index_iterators_index_assignment1 + Start 243: test_demo_tutorial_index_iterators_iterator_assignment2 -243: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout" +243: 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" 243: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 243: Test timeout computed to be: 10000000 -86: test_pipe_test_mapper_partially_filled OK -204/414 Test #216: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.71 sec -205/414 Test #208: test_demo_tutorial_bed_io_base .................................................... Passed 0.81 sec -206/414 Test #226: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.61 sec -207/414 Test #17: test_test_align_parallel_interface_sse4_host ...................................... Passed 3.06 sec -208/414 Test #221: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.67 sec -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. -209/414 Test #219: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.69 sec -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. -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. -210/414 Test #232: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.51 sec -227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_hint. -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. -211/414 Test #227: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.59 sec -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 -84: stop reader #1 100000 -84: throughput: 450883 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: 4220082 values/s -84: cap: 76331 -84: test_parallel_queue_spsc_dynamicsize OK -84: threads: 4 -84: writers: 1 -84: stop reader #1 73688 -84: stop reader #3 14368 -84: stop reader #2 11944 -84: throughput: 818336 values/s -84: cap: 30 -84: test_parallel_queue_spmc_fixedsize OK -84: threads: 4 -84: writers: 1 -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. -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. -212/414 Test #220: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.69 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. -213/414 Test #225: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.62 sec -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. +235: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1. +235: Return code was 0. +235: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout", "None". +235: Standard output was as expected. +235: Standard error was as expected. +233: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout", "None". 233: Standard output was as expected. 233: Standard error was as expected. -214/414 Test #233: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.50 sec -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. -215/414 Test #230: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.55 sec -115: FileStreamTest_WriteLarge type parameter seqan::Async OK -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. -216/414 Test #223: test_demo_tutorial_fragment_store_base ............................................ Passed 0.64 sec -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: ************************************** -217/414 Test #18: test_test_align_parallel_interface_avx2_host ...................................... Passed 3.05 sec -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+)?") -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. -218/414 Test #231: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.52 sec -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. -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. -219/414 Test #204: test_demo_tutorial_basics_allocator ............................................... Passed 0.87 sec -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 -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -69: ************************************** -69: Total Tests: 14 -69: Skipped: 0 -69: Errors: 0 -69: ************************************** -220/414 Test #69: test_test_index_vstree ............................................................ Passed 2.62 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 -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. -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: ************************************** -221/414 Test #24: test_test_alignment_free .......................................................... Passed 3.02 sec -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+)?") -234: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example1. +234: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout", "None". 234: Standard output was as expected. 234: 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. -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. -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. -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. 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. +237: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2. +224/407 Test #232: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.22 sec +225/407 Test #235: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.17 sec 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. -222/414 Test #239: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.29 sec -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. -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. -223/414 Test #241: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.27 sec test 244 - Start 244: test_demo_tutorial_index_iterators_index_assignment2 + Start 244: test_demo_tutorial_index_iterators_iterator_solution1 -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: 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" 244: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 244: Test timeout computed to be: 10000000 test 245 - Start 245: test_demo_tutorial_index_iterators_index_bidirectional_search + Start 245: test_demo_tutorial_index_iterators_iterator_solution2 -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: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.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 +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+)?") +236: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1. +61: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +226/407 Test #233: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.23 sec +237: Return code was 0. +237: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout", "None". +237: Standard output was as expected. +237: Standard error was as expected. test 246 - Start 246: test_demo_tutorial_index_iterators_index_preorder + Start 246: test_demo_tutorial_index_iterators_iterator_solution3 -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: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.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 +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+)?") +236: Return code was 0. +236: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout", "None". +236: Standard output was as expected. +236: Standard error was as expected. +227/407 Test #234: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.24 sec test 247 - Start 247: test_demo_tutorial_index_iterators_index_property_maps + Start 247: test_demo_tutorial_indexed_fasta_io_base -247: 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_property_maps" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout" +247: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout" 247: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 247: Test timeout computed to be: 10000000 +80: test_pipe_test_sorter OK +80: test_pipe_sampler OK +80: test_pipe_tupler OK +80: test_pipe_tupler_multi OK +80: ************************************** +80: Total Tests: 8 +80: Skipped: 0 +80: Errors: 0 +80: ************************************** +240: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_property_maps. +239: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder. +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+)?") +228/407 Test #80: test_test_pipe .................................................................... Passed 4.86 sec +229/407 Test #236: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.22 sec +230/407 Test #237: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.22 sec test 248 - Start 248: test_demo_tutorial_index_iterators_index_search + Start 248: test_demo_tutorial_indexed_fasta_io_solution1 -248: 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_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout" +248: 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" 248: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 248: Test timeout computed to be: 10000000 test 249 - Start 249: test_demo_tutorial_index_iterators_index_search2 + Start 249: test_demo_tutorial_indexed_fasta_io_solution2 -249: 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_search2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout" +249: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stderr" 249: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 249: Test timeout computed to be: 10000000 test 250 - Start 250: test_demo_tutorial_index_iterators_iterator_assignment2 + Start 250: test_demo_tutorial_indices_assignment_1 -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: 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" 250: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 250: Test timeout computed to be: 10000000 +241: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search. +241: Return code was 0. +241: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout", "None". +241: Standard output was as expected. +241: Standard error was as expected. +238: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search. +238: Return code was 0. +238: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout", "None". +238: Standard output was as expected. +238: Standard error was as expected. +239: Return code was 0. +239: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout", "None". +239: Standard output was as expected. +239: Standard error was as expected. +240: Return code was 0. +240: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout", "None". +240: Standard output was as expected. +240: Standard error was as expected. +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+)?") +60: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +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+)?") +231/407 Test #239: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.22 sec +232/407 Test #240: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.20 sec test 251 - Start 251: test_demo_tutorial_index_iterators_iterator_solution1 + Start 251: test_demo_tutorial_indices_assignment_2 -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: 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" 251: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 251: Test timeout computed to be: 10000000 test 252 - Start 252: test_demo_tutorial_index_iterators_iterator_solution2 + Start 252: test_demo_tutorial_indices_base -252: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp.stdout" +252: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout" 252: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 252: Test timeout computed to be: 10000000 +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+)?") +245: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution2. +242: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search2. +233/407 Test #238: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.26 sec test 253 - Start 253: test_demo_tutorial_index_iterators_iterator_solution3 + Start 253: test_demo_tutorial_iterators_assignment_1 -253: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.cpp.stdout" +253: 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_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout" 253: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 253: Test timeout computed to be: 10000000 +60: ************************************** +60: Total Tests: 28 +60: Skipped: 0 +60: Errors: 0 +60: ************************************** +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+)?") +108: FileStreamTest_SeekLarge type parameter seqan::Async OK +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+)?") +245: Return code was 0. +245: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp.stdout", "None". +245: Standard output was as expected. +245: Standard error was as expected. +234/407 Test #60: test_test_index_base .............................................................. Passed 5.38 sec +235/407 Test #241: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.22 sec test 254 - Start 254: test_demo_tutorial_indexed_fasta_io_base + Start 254: test_demo_tutorial_iterators_assignment_1_solution -254: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout" +254: 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_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout" 254: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 254: Test timeout computed to be: 10000000 test 255 - Start 255: test_demo_tutorial_indexed_fasta_io_solution1 + Start 255: test_demo_tutorial_iterators_assignment_2_solution -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: 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" 255: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 255: Test timeout computed to be: 10000000 +246: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution3. +246: Return code was 0. +246: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.cpp.stdout", "None". +246: Standard output was as expected. +246: Standard error was as expected. +242: Return code was 0. +242: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout", "None". +242: Standard output was as expected. +242: Standard error was as expected. +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+)?") +243: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_assignment2. +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+)?") +236/407 Test #242: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.23 sec +237/407 Test #245: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.18 sec test 256 - Start 256: test_demo_tutorial_indexed_fasta_io_solution2 + Start 256: test_demo_tutorial_iterators_assignment_3_workshop -256: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stderr" +256: 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" 256: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 256: Test timeout computed to be: 10000000 test 257 - Start 257: test_demo_tutorial_indices_assignment_1 + Start 257: test_demo_tutorial_iterators_assignment_3_workshop_solution -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: 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" 257: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 257: Test timeout computed to be: 10000000 +244: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1. +244: Return code was 0. +244: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout", "None". +244: Standard output was as expected. +244: Standard error was as expected. +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_iterators_assignment_1. +253: Return code was 0. +253: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout", "None". +253: Standard output was as expected. +253: Standard error was as expected. +243: Return code was 0. +243: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp.stdout", "None". +243: Standard output was as expected. +243: 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+)?") +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+)?") +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+)?") +248: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1. +250: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1. +238/407 Test #243: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.26 sec +239/407 Test #246: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.21 sec test 258 - Start 258: test_demo_tutorial_indices_assignment_2 + Start 258: test_demo_tutorial_iterators_assignment_4_workshop_solution -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: 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" 258: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 258: Test timeout computed to be: 10000000 test 259 - Start 259: test_demo_tutorial_indices_base + Start 259: test_demo_tutorial_iterators_base -259: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout" +259: 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" 259: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 259: Test timeout computed to be: 10000000 +247: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. +247: Return code was 0. +247: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout", "None". +247: Standard output was as expected. +247: Standard error was as expected. +248: Return code was 0. +248: 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". +248: Standard output was as expected. +248: Standard error was as expected. +250: Return code was 0. +250: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout", "None". +250: Standard output was as expected. +250: Standard error was as expected. +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+)?") +240/407 Test #244: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.27 sec +241/407 Test #248: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.18 sec +242/407 Test #253: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.12 sec test 260 - Start 260: test_demo_tutorial_iterators_assignment_1 + Start 260: test_demo_tutorial_iterators_sequence_iterator_demo -260: 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_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout" +260: 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_sequence_iterator_demo" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout" 260: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 260: Test timeout computed to be: 10000000 test 261 - Start 261: test_demo_tutorial_iterators_assignment_1_solution + Start 261: test_demo_tutorial_journaled_set_base -261: 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_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout" +261: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout" 261: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 261: Test timeout computed to be: 10000000 test 262 - Start 262: test_demo_tutorial_iterators_assignment_2_solution + Start 262: test_demo_tutorial_journaled_set_example_join -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: 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_join" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.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 +249: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution2. +249: Return code was 0. +249: 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". +249: Standard output was as expected. +249: Standard error was as expected. +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_iterators_assignment_2_solution. +252: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_base. +252: Return code was 0. +252: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout", "None". +252: Standard output was as expected. +252: Standard error was as expected. +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+)?") +251: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2. +251: Return code was 0. +251: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout", "None". +251: Standard output was as expected. +251: Standard error was as expected. +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+)?") +243/407 Test #247: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.27 sec +244/407 Test #249: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.23 sec +245/407 Test #250: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.22 sec test 263 - Start 263: test_demo_tutorial_iterators_assignment_3_workshop + Start 263: test_demo_tutorial_journaled_set_example_journal_string_basic -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: 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" 263: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 263: Test timeout computed to be: 10000000 test 264 - Start 264: test_demo_tutorial_iterators_assignment_3_workshop_solution + Start 264: test_demo_tutorial_journaled_set_example_online_search -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: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.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 test 265 - Start 265: test_demo_tutorial_iterators_assignment_4_workshop_solution + Start 265: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint -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: 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" 265: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 265: Test timeout computed to be: 10000000 -224/414 Test #217: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 0.87 sec -225/414 Test #218: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.86 sec +254: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution. +254: Return code was 0. +254: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout", "None". +254: Standard output was as expected. +254: Standard error was as expected. +256: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop. +256: Return code was 0. +256: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp.stdout", "None". +256: Standard output was as expected. +256: 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+)?") +255: Return code was 0. +255: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout", "None". +255: Standard output was as expected. +255: Standard error was as expected. +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+)?") +257: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop_solution. +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+)?") +246/407 Test #251: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.26 sec +247/407 Test #252: test_demo_tutorial_indices_base ................................................... Passed 0.25 sec +248/407 Test #254: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.23 sec +249/407 Test #255: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.21 sec +250/407 Test #256: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.19 sec test 266 - Start 266: test_demo_tutorial_iterators_base + Start 266: test_demo_tutorial_journaled_set_solution_online_search_assignment1 -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: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.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 test 267 - Start 267: test_demo_tutorial_iterators_sequence_iterator_demo + Start 267: test_demo_tutorial_journaled_set_solution_online_search_assignment2 -267: 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_sequence_iterator_demo" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout" +267: 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" 267: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 267: Test timeout computed to be: 10000000 -226/414 Test #235: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.50 sec -227/414 Test #236: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.50 sec -228/414 Test #238: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.48 sec -229/414 Test #237: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.49 sec -230/414 Test #240: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.46 sec -231/414 Test #224: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.81 sec -232/414 Test #234: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.65 sec -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -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. -84: stop reader #2 54132 -84: stop reader #3 19948 -84: stop reader #1 25920 -84: throughput: 855707 values/s -84: cap: 33923 -84: test_parallel_queue_spmc_dynamicsize OK -84: threads: 3 -84: writers: 2 -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+)?") -115: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK -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+)?") -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. -233/414 Test #246: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.16 sec -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+)?") -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. -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+)?") -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. -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+)?") -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. -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. test 268 - Start 268: test_demo_tutorial_journaled_set_base + Start 268: test_demo_tutorial_journaled_set_solution_online_search_assignment3 -268: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout" +268: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout" 268: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 268: Test timeout computed to be: 10000000 test 269 - Start 269: test_demo_tutorial_journaled_set_example_join + Start 269: test_demo_tutorial_journaled_set_solution_online_search_assignment4 -269: 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_join" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp.stdout" +269: 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" 269: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 269: Test timeout computed to be: 10000000 test 270 - Start 270: test_demo_tutorial_journaled_set_example_journal_string_basic + Start 270: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base -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: 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_string_tree_journaled_string_tree_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.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 +260: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_sequence_iterator_demo. +260: Return code was 0. +260: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout", "None". +260: Standard output was as expected. +260: Standard error was as expected. +251/407 Test #260: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.20 sec +257: Return code was 0. +257: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp.stdout", "None". +257: Standard output was as expected. +257: Standard error was as expected. +252/407 Test #257: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.26 sec +258: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_4_workshop_solution. +258: Return code was 0. +258: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp.stdout", "None". +258: Standard output was as expected. +258: Standard error was as expected. +253/407 Test #258: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.24 sec +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_journaled_set_example_join. +262: Return code was 0. +262: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp.stdout", "None". +262: Standard output was as expected. +262: Standard error was as expected. +259: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base. +259: Return code was 0. +259: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout", "None". +259: Standard output was as expected. +259: Standard error was as expected. +254/407 Test #259: test_demo_tutorial_iterators_base ................................................. Passed 0.22 sec +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_journaled_set_example_journal_string_basic. +263: Return code was 0. +263: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp.stdout", "None". +263: Standard output was as expected. +263: Standard error was as expected. +108: FileStreamTest_SeekLarge type parameter seqan::MMap >, unsigned long> > OK +108: VStreamTest_Construct type parameter seqan::Tag OK +108: VStreamTest_Construct type parameter seqan::Tag OK +108: VStreamTest_Construct type parameter seqan::Tag OK +108: VStreamTest_Construct type parameter seqan::Tag OK +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_journaled_set_example_online_search. +261: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_base. +261: Return code was 0. +261: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout", "None". +261: Standard output was as expected. +261: Standard error was as expected. test 271 - Start 271: test_demo_tutorial_journaled_set_example_online_search + Start 271: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -271: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout" +271: 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_string_tree_journaled_string_tree_base_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout" 271: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 271: Test timeout computed to be: 10000000 test 272 - Start 272: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint + Start 272: test_demo_tutorial_metafunctions_assignment1_solution -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: 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_assignment1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.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 test 273 - Start 273: test_demo_tutorial_journaled_set_solution_online_search_assignment1 + Start 273: test_demo_tutorial_metafunctions_base -273: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout" +273: 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" 273: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 273: Test timeout computed to be: 10000000 test 274 - Start 274: test_demo_tutorial_journaled_set_solution_online_search_assignment2 + Start 274: test_demo_tutorial_modifiers_UNUSED_modcomplementdna -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: 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" 274: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 274: Test timeout computed to be: 10000000 +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_journaled_set_example_online_search_assignment1_hint. +255/407 Test #261: test_demo_tutorial_journaled_set_base ............................................. Passed 0.27 sec +256/407 Test #262: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.25 sec test 275 - Start 275: test_demo_tutorial_journaled_set_solution_online_search_assignment3 + Start 275: test_demo_tutorial_modifiers_assignment1 -275: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout" +275: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout" 275: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 275: Test timeout computed to be: 10000000 -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. -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. -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. -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. -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. -234/414 Test #245: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.23 sec -235/414 Test #252: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.29 sec test 276 - Start 276: test_demo_tutorial_journaled_set_solution_online_search_assignment4 + Start 276: test_demo_tutorial_modifiers_assignment1_solution -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: 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_assignment1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.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 +257/407 Test #263: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.26 sec +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_journaled_set_solution_online_search_assignment2. +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_journaled_set_solution_online_search_assignment1. +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_solution_online_search_assignment3. +108: VStreamTest_OpenClose type parameter seqan::Tag OK +108: VStreamTest_OpenClose type parameter seqan::Tag OK +108: VStreamTest_OpenClose type parameter seqan::Tag OK +108: VStreamTest_OpenClose type parameter seqan::Tag OK +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+)?") test 277 - Start 277: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base + Start 277: test_demo_tutorial_modifiers_modreverse -277: 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_string_tree_journaled_string_tree_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.stdout" +277: 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_modreverse" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout" 277: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 277: Test timeout computed to be: 10000000 -236/414 Test #250: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.31 sec -237/414 Test #248: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.33 sec -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. -238/414 Test #257: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.28 sec -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. -239/414 Test #258: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.27 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. -240/414 Test #247: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.34 sec -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+)?") -259: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_base. -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. -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: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. -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". -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. -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. -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. -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. -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. -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. -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. -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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout", "None". 265: Standard output was as expected. 265: Standard error was as expected. -84: stop reader #2 100000 -84: throughput: 400596 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 -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. -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. -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". -269: Standard output was as expected. -269: 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+)?") -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. 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+)?") -271: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search. +258/407 Test #265: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.25 sec +test 278 + Start 278: test_demo_tutorial_modifiers_modview + +278: 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_modview" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout" +278: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +278: Test timeout computed to be: 10000000 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. +61: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +61: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +269: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4. +271: 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. +270: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base. 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. -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. +108: VStreamTest_Decompression type parameter seqan::Tag OK +108: VStreamTest_Decompression type parameter seqan::Tag OK +108: VStreamTest_Decompression type parameter seqan::Tag OK +108: VStreamTest_Decompression type parameter seqan::Tag OK 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. -test 278 - Start 278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 - -278: 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_string_tree_journaled_string_tree_base_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout" -278: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -278: Test timeout computed to be: 10000000 +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+)?") +273: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_base. +272: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_assignment1_solution. +273: Return code was 0. +273: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp.stdout", "None". +273: Standard output was as expected. +273: 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+)?") +272: Return code was 0. +272: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout", "None". +272: Standard output was as expected. +272: Standard error was as expected. +271: Return code was 0. +271: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout", "None". +271: Standard output was as expected. +271: Standard error was as expected. +259/407 Test #273: test_demo_tutorial_metafunctions_base ............................................. Passed 0.20 sec test 279 - Start 279: test_demo_tutorial_metafunctions_assignment1_solution + Start 279: test_demo_tutorial_modifiers_nested -279: 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_assignment1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout" +279: 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_nested" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout" 279: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 279: Test timeout computed to be: 10000000 +260/407 Test #271: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.26 sec +270: Return code was 0. +270: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.stdout", "None". +270: Standard output was as expected. +270: Standard error was as expected. +274: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna. test 280 - Start 280: test_demo_tutorial_metafunctions_base + Start 280: test_demo_tutorial_multiple_sequence_alignment_assignment1 -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: 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" 280: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 280: Test timeout computed to be: 10000000 +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+)?") +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+)?") +108: VStreamTest_Compression type parameter seqan::Tag OK +275: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1. +261/407 Test #272: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.25 sec test 281 - Start 281: test_demo_tutorial_modifiers_UNUSED_modcomplementdna + Start 281: test_demo_tutorial_multiple_sequence_alignment_consensus -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: 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" 281: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 281: Test timeout computed to be: 10000000 +278: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modview. +275: Return code was 0. +275: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout", "None". +275: Standard output was as expected. +275: Standard error was as expected. +262/407 Test #270: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.32 sec +274: Return code was 0. +274: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout", "None". +274: Standard output was as expected. +274: Standard error was as expected. +278: Return code was 0. +278: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout", "None". +278: Standard output was as expected. +278: Standard error was as expected. +108: VStreamTest_Compression type parameter seqan::Tag OK +267: Return code was 0. +267: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout", "None". +267: Standard output was as expected. +267: Standard error was as expected. test 282 - Start 282: test_demo_tutorial_modifiers_assignment1 + Start 282: test_demo_tutorial_multiple_sequence_alignment_msa -282: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout" +282: 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" 282: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 282: Test timeout computed to be: 10000000 -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". -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 -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". -241/414 Test #260: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.31 sec -242/414 Test #261: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.31 sec -243/414 Test #263: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.29 sec -244/414 Test #264: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.29 sec -245/414 Test #267: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.26 sec -246/414 Test #269: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.24 sec +263/407 Test #275: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.25 sec test 283 - Start 283: test_demo_tutorial_modifiers_assignment1_solution + Start 283: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded -283: 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_assignment1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout" +283: 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" 283: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 283: Test timeout computed to be: 10000000 +264/407 Test #274: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.28 sec +265/407 Test #278: test_demo_tutorial_modifiers_modview .............................................. Passed 0.21 sec test 284 - Start 284: test_demo_tutorial_modifiers_modreverse + Start 284: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 -284: 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_modreverse" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout" +284: 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" 284: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 284: Test timeout computed to be: 10000000 test 285 - Start 285: test_demo_tutorial_modifiers_modview + Start 285: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 -285: 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_modview" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout" +285: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout" 285: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 285: Test timeout computed to be: 10000000 +266/407 Test #267: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 0.45 sec +277: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modreverse. +277: Return code was 0. +277: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout", "None". +277: Standard output was as expected. +277: 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+)?") +264: Return code was 0. +264: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout", "None". +264: Standard output was as expected. +264: Standard error was as expected. test 286 - Start 286: test_demo_tutorial_modifiers_nested + Start 286: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -286: 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_nested" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout" +286: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout" 286: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 286: Test timeout computed to be: 10000000 +279: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_nested. +279: Return code was 0. +279: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout", "None". +279: Standard output was as expected. +279: Standard error was as expected. +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_multiple_sequence_alignment_assignment1. +276: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1_solution. +276: Return code was 0. +276: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout", "None". +276: Standard output was as expected. +276: Standard error was as expected. +266: Return code was 0. +266: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout", "None". +266: Standard output was as expected. +266: 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+)?") +267/407 Test #264: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.55 sec +268/407 Test #276: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.32 sec +269/407 Test #277: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.31 sec test 287 - Start 287: test_demo_tutorial_multiple_sequence_alignment_assignment1 + Start 287: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -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: 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_overlap" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.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 + Start 288: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -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: 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_specialised" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.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 -247/414 Test #270: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.28 sec -248/414 Test #266: test_demo_tutorial_iterators_base ................................................. Passed 0.32 sec -249/414 Test #268: test_demo_tutorial_journaled_set_base ............................................. Passed 0.29 sec -250/414 Test #242: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.49 sec -251/414 Test #262: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.35 sec -252/414 Test #272: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.26 sec -253/414 Test #243: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.49 sec -254/414 Test #265: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.33 sec -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. -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+)?") test 289 - Start 289: test_demo_tutorial_multiple_sequence_alignment_msa + Start 289: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard -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: 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" 289: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 289: Test timeout computed to be: 10000000 +270/407 Test #266: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.55 sec +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_multiple_sequence_alignment_msa. +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+)?") test 290 - Start 290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded + Start 290: test_demo_tutorial_pairwise_sequence_alignment_alignment_local -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: 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_local" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.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 +280: Return code was 0. +280: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout", "None". +280: Standard output was as expected. +280: Standard error was as expected. +281: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. +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+)?") +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+)?") +268: Return code was 0. +268: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout", "None". +268: Standard output was as expected. +268: Standard error was as expected. +271/407 Test #279: test_demo_tutorial_modifiers_nested ............................................... Passed 0.22 sec +272/407 Test #280: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.20 sec test 291 - Start 291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 + Start 291: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_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: 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_local_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_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 + Start 292: test_demo_tutorial_pairwise_sequence_alignment_assignment5 -292: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout" +292: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout" 292: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 292: Test timeout computed to be: 10000000 +273/407 Test #268: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.57 sec +283: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded. +283: Return code was 0. +283: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout", "None". +283: Standard output was as expected. +283: Standard error was as expected. test 293 - Start 293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 + Start 293: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 -293: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout" +293: 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" 293: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 293: Test timeout computed to be: 10000000 +285: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2. +285: Return code was 0. +285: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout", "None". +285: Standard output was as expected. +285: Standard error was as expected. +282: Return code was 0. +282: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout", "None". +282: Standard output was as expected. +282: 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+)?") +269: Return code was 0. +269: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout", "None". +269: Standard output was as expected. +269: Standard error was as expected. +284: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1. +284: Return code was 0. +284: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout", "None". +284: Standard output was as expected. +284: 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+)?") +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+)?") +274/407 Test #269: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.57 sec +275/407 Test #282: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.22 sec +276/407 Test #283: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.21 sec test 294 - Start 294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap + Start 294: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 -294: 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_overlap" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout" +294: 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_step2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout" 294: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 294: Test timeout computed to be: 10000000 test 295 - Start 295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised + Start 295: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -295: 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_specialised" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout" +295: 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" 295: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 295: Test timeout computed to be: 10000000 test 296 - Start 296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard + Start 296: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 -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: 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" 296: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 296: Test timeout computed to be: 10000000 -79: .................................................................................................... -79: test_map_map OK -79: ************************************** -79: Total Tests: 1 -79: Skipped: 0 -79: Errors: 0 -79: ************************************** -115: FileStreamTest_SeekLarge type parameter seqan::Async OK -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. -66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -255/414 Test #79: test_test_map ..................................................................... Passed 3.02 sec +277/407 Test #285: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.23 sec +286: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3. +286: Return code was 0. +286: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout", "None". +286: Standard output was as expected. +286: Standard error was as expected. +278/407 Test #284: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.25 sec +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_pairwise_sequence_alignment_alignment_global_specialised. test 297 - Start 297: test_demo_tutorial_pairwise_sequence_alignment_alignment_local + Start 297: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 -297: 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_local" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp.stdout" +297: 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" 297: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 297: Test timeout computed to be: 10000000 -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. -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. -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. -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. -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: ************************************** -256/414 Test #86: test_test_pipe .................................................................... Passed 2.93 sec -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+)?") -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+)?") -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. -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: /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+)?") -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. -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+)?") test 298 - Start 298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 + Start 298: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -298: 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_local_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout" +298: 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_step6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout" 298: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 298: Test timeout computed to be: 10000000 -257/414 Test #280: test_demo_tutorial_metafunctions_base ............................................. Passed 0.16 sec -test 299 - Start 299: test_demo_tutorial_pairwise_sequence_alignment_assignment5 - -299: 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" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout" -299: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -299: Test timeout computed to be: 10000000 -287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1. +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+)?") +290: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local. +290: Return code was 0. +290: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp.stdout", "None". +290: Standard output was as expected. +290: Standard error was as expected. +287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout", "None". 287: Standard output was as expected. 287: Standard error was as expected. -258/414 Test #281: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.17 sec -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: 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. -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. 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_local_assignment1. +289: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard. +289: Return code was 0. +289: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout", "None". +289: Standard output was as expected. +289: 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+)?") +279/407 Test #286: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.24 sec +test 299 + Start 299: test_demo_tutorial_parsing_command_line_arguments_base + +299: 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_parsing_command_line_arguments_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout" +299: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +299: Test timeout computed to be: 10000000 +280/407 Test #287: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.23 sec +281/407 Test #289: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.21 sec +281: Return code was 0. +281: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout", "None". +281: Standard output was as expected. +281: Standard error was as expected. +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+)?") +288: Return code was 0. +288: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout", "None". +288: Standard output was as expected. +288: Standard error was as expected. test 300 - Start 300: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 + Start 300: test_demo_tutorial_pattern_matching_assignment1 -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: 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" 300: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 300: Test timeout computed to be: 10000000 -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+)?") -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. -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+)?") -259/414 Test #273: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.37 sec -260/414 Test #279: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.19 sec test 301 - Start 301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 + Start 301: test_demo_tutorial_pattern_matching_assignment1_solution -301: 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_step2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout" +301: 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_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout" 301: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 301: Test timeout computed to be: 10000000 +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: Return code was 0. +291: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout", "None". +291: Standard output was as expected. +291: 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+)?") +295: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3. +292: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5. +292: Return code was 0. +292: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout", "None". +292: Standard output was as expected. +292: Standard error was as expected. +282/407 Test #281: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.41 sec +283/407 Test #288: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.26 sec +284/407 Test #290: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.23 sec +285/407 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.22 sec test 302 - Start 302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 + Start 302: test_demo_tutorial_pattern_matching_assignment2 -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: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.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 -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+)?") -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. -261/414 Test #275: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.39 sec -262/414 Test #284: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.18 sec -244: Standard output was as expected. -244: Standard error was as expected. -253: Standard output was as expected. -253: Standard error was as expected. test 303 - Start 303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 + Start 303: test_demo_tutorial_pattern_matching_assignment2_solution -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: 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_assignment2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.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 test 304 - Start 304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 + Start 304: test_demo_tutorial_pattern_matching_assignment3 -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: 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" 304: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 304: Test timeout computed to be: 10000000 -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. -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. -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+)?") -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. -249: Standard output was as expected. -249: Standard error was as expected. -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. -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 -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. -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. -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+)?") -251: Standard output was as expected. -251: 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. -288: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. -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. -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. -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. -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. -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. -263/414 Test #244: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.67 sec -264/414 Test #259: test_demo_tutorial_indices_base ................................................... Passed 0.58 sec -265/414 Test #277: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.33 sec -266/414 Test #278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.30 sec -267/414 Test #282: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.27 sec -268/414 Test #283: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.25 sec -269/414 Test #287: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.23 sec test 305 - Start 305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 + Start 305: test_demo_tutorial_pattern_matching_assignment3_solution -305: 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_step6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout" +305: 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" 305: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 305: Test timeout computed to be: 10000000 +286/407 Test #292: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.27 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+)?") +296: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4. +296: Return code was 0. +296: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout", "None". +296: Standard output was as expected. +296: 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_assignment5_step2. +294: Return code was 0. +294: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout", "None". +294: Standard output was as expected. +294: Standard error was as expected. +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+)?") +297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5. +297: Return code was 0. +297: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout", "None". +297: Standard output was as expected. +297: Standard error was as expected. test 306 - Start 306: test_demo_tutorial_parsing_command_line_arguments_base + Start 306: test_demo_tutorial_pattern_matching_find_approx -306: 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_parsing_command_line_arguments_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout" +306: 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_approx" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout" 306: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 306: Test timeout computed to be: 10000000 +293: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1. +293: Return code was 0. +293: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout", "None". +293: Standard output was as expected. +293: Standard error was as expected. +295: Return code was 0. +295: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout", "None". +295: Standard output was as expected. +295: 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_assignment5_step6. +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_parsing_command_line_arguments_base. +61: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +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+)?") +287/407 Test #293: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.26 sec +288/407 Test #294: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.24 sec +289/407 Test #295: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.22 sec test 307 - Start 307: test_demo_tutorial_pattern_matching_assignment1 + Start 307: test_demo_tutorial_pattern_matching_find_exact -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: 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_exact" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.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 test 308 - Start 308: test_demo_tutorial_pattern_matching_assignment1_solution + Start 308: test_demo_tutorial_pattern_matching_find_index -308: 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_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout" +308: 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" 308: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 308: Test timeout computed to be: 10000000 test 309 - Start 309: test_demo_tutorial_pattern_matching_assignment2 + Start 309: test_demo_tutorial_pattern_matching_find_index_multiple -309: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp.stdout" +309: 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_multiple" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout" 309: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 309: Test timeout computed to be: 10000000 +290/407 Test #297: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.25 sec +291/407 Test #296: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.26 sec +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+)?") +302: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2. +302: Return code was 0. +302: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp.stdout", "None". +302: Standard output was as expected. +302: Standard error was as expected. test 310 - Start 310: test_demo_tutorial_pattern_matching_assignment2_solution + Start 310: test_demo_tutorial_q_gram_index_index_assignment5 -310: 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_assignment2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp.stdout" +310: 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" 310: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 310: Test timeout computed to be: 10000000 test 311 - Start 311: test_demo_tutorial_pattern_matching_assignment3 + Start 311: test_demo_tutorial_q_gram_index_index_assignment6 -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: 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" 311: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 311: Test timeout computed to be: 10000000 -270/414 Test #286: test_demo_tutorial_modifiers_nested ............................................... Passed 0.28 sec -271/414 Test #294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.23 sec -272/414 Test #249: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.70 sec -273/414 Test #254: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.67 sec -274/414 Test #285: test_demo_tutorial_modifiers_modview .............................................. Passed 0.29 sec -275/414 Test #251: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.69 sec -276/414 Test #271: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.53 sec -277/414 Test #289: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.27 sec -278/414 Test #256: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.66 sec -279/414 Test #255: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.67 sec -280/414 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.25 sec -281/414 Test #298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.19 sec -282/414 Test #253: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.68 sec -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. -283/414 Test #290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.26 sec -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. -284/414 Test #274: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 0.52 sec -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. -285/414 Test #299: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.19 sec -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+)?") -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. -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. -286/414 Test #276: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.40 sec -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+)?") -297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local. -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. -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+)?") -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. -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+)?") +298: Return code was 0. +298: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout", "None". +298: Standard output was as expected. +298: 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+)?") -301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2. +301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1_solution. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout", "None". 301: Standard output was as expected. 301: Standard error was as expected. -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+)?") -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+)?") -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. 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: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2_solution. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp.stdout", "None". 303: Standard output was as expected. 303: Standard error was as expected. +299: Return code was 0. +299: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout", "None". +299: Standard output was as expected. +299: Standard error was as expected. +300: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1. +300: Return code was 0. +300: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout", "None". +300: Standard output was as expected. +300: Standard error was as expected. +292/407 Test #298: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.26 sec +293/407 Test #299: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.24 sec test 312 - Start 312: test_demo_tutorial_pattern_matching_assignment3_solution + Start 312: test_demo_tutorial_q_gram_index_index_qgram -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: 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" 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 + Start 313: test_demo_tutorial_q_gram_index_index_qgram_hash -313: 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_approx" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout" +313: 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_hash" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout" 313: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 313: Test timeout computed to be: 10000000 +294/407 Test #302: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.22 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+)?") test 314 - Start 314: test_demo_tutorial_pattern_matching_find_exact + Start 314: test_demo_tutorial_realignment_step1 -314: 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_exact" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp.stdout" +314: 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" 314: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 314: Test timeout computed to be: 10000000 +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+)?") +307: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_exact. +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+)?") +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+)?") +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+)?") +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+)?") +295/407 Test #300: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.28 sec +296/407 Test #301: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.26 sec +297/407 Test #303: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.23 sec test 315 - Start 315: test_demo_tutorial_pattern_matching_find_index + Start 315: test_demo_tutorial_realignment_step2 -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: 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" 315: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 315: Test timeout computed to be: 10000000 test 316 - Start 316: test_demo_tutorial_pattern_matching_find_index_multiple + Start 316: test_demo_tutorial_sam_and_bam_io_base -316: 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_multiple" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout" +316: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout" 316: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 316: Test timeout computed to be: 10000000 test 317 - Start 317: test_demo_tutorial_q_gram_index_index_assignment5 + Start 317: test_demo_tutorial_sam_and_bam_io_example1 -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: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.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 +304: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3. +304: Return code was 0. +304: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout", "None". +304: Standard output was as expected. +304: 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+)?") +311: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6. +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+)?") +306: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_approx. +306: Return code was 0. +306: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout", "None". +306: Standard output was as expected. +306: Standard error was as expected. +308: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index. +308: Return code was 0. +308: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp.stdout", "None". +308: Standard output was as expected. +308: Standard error was as expected. +305: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution. +305: Return code was 0. +305: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout", "None". +305: Standard output was as expected. +305: Standard error was as expected. +309: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index_multiple. +309: Return code was 0. +309: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout", "None". +309: Standard output was as expected. +309: Standard error was as expected. +307: Return code was 0. +307: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp.stdout", "None". +307: Standard output was as expected. +307: Standard error was as expected. +108: VStreamTest_Compression type parameter seqan::Tag OK +108: VStreamTest_Compression type parameter seqan::Tag OK +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+)?") +298/407 Test #304: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.26 sec +299/407 Test #306: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.23 sec +300/407 Test #307: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.21 sec test 318 - Start 318: test_demo_tutorial_q_gram_index_index_assignment6 + Start 318: test_demo_tutorial_sam_and_bam_io_example2 -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: 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_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.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 test 319 - Start 319: test_demo_tutorial_q_gram_index_index_qgram + Start 319: test_demo_tutorial_sam_and_bam_io_example7 -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: 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_example7" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.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 test 320 - Start 320: test_demo_tutorial_q_gram_index_index_qgram_hash + Start 320: test_demo_tutorial_sam_and_bam_io_solution1 -320: 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_hash" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout" +320: 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" 320: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 320: 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+)?") +310: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment5. +310: Return code was 0. +310: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp.stdout", "None". +310: Standard output was as expected. +310: Standard error was as expected. +311: Return code was 0. +311: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout", "None". +311: Standard output was as expected. +311: Standard error was as expected. +312: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram. +312: Return code was 0. +312: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout", "None". +312: Standard output was as expected. +312: Standard error was as expected. +108: VStreamTest_AutoDetection type parameter seqan::Tag OK +108: VStreamTest_AutoDetection type parameter seqan::Tag OK +108: VStreamTest_AutoDetection type parameter seqan::Tag OK +108: VStreamTest_AutoDetection type parameter seqan::Tag OK +108: WriteTest_StdString type parameter seqan::String > OK +108: InputStreamTest_Open type parameter std::basic_fstream > OK +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+)?") +301/407 Test #305: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.28 sec +302/407 Test #308: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.23 sec +303/407 Test #309: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.21 sec +304/407 Test #310: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.19 sec test 321 - Start 321: test_demo_tutorial_realignment_step1 + Start 321: test_demo_tutorial_sam_and_bam_io_solution2 -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: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.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 test 322 - Start 322: test_demo_tutorial_realignment_step2 + Start 322: test_demo_tutorial_sam_and_bam_io_solution3 -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: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.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 test 323 - Start 323: test_demo_tutorial_sam_and_bam_io_base + Start 323: test_demo_tutorial_seed_and_extend_example1 -323: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout" +323: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout" 323: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 323: Test timeout computed to be: 10000000 test 324 - Start 324: test_demo_tutorial_sam_and_bam_io_example1 + Start 324: test_demo_tutorial_seed_and_extend_example2 -324: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp.stdout" +324: 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_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout" 324: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 324: Test timeout computed to be: 10000000 +108: InputStreamTest_Open type parameter std::basic_ifstream > OK +313: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram_hash. +313: Return code was 0. +313: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout", "None". +313: Standard output was as expected. +313: 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+)?") +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+)?") +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+)?") +314: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1. +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+)?") +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+)?") +305/407 Test #311: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.24 sec +306/407 Test #312: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.23 sec +307/407 Test #313: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.21 sec test 325 - Start 325: test_demo_tutorial_sam_and_bam_io_example2 + Start 325: test_demo_tutorial_seed_and_extend_example3 -325: 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_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout" +325: 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_example3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp.stdout" 325: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 325: Test timeout computed to be: 10000000 test 326 - Start 326: test_demo_tutorial_sam_and_bam_io_example7 + Start 326: test_demo_tutorial_seed_and_extend_example4 -326: 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_example7" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout" +326: 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_example4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout" 326: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 326: Test timeout computed to be: 10000000 test 327 - Start 327: test_demo_tutorial_sam_and_bam_io_solution1 + Start 327: test_demo_tutorial_seed_and_extend_example5 -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: 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" 327: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 327: Test timeout computed to be: 10000000 +319: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7. +315: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2. +317: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example1. +317: Return code was 0. +317: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp.stdout", "None". +317: Standard output was as expected. +317: Standard error was as expected. +314: Return code was 0. +314: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout", "None". +314: Standard output was as expected. +314: 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+)?") +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+)?") +316: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_base. +316: Return code was 0. +316: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout", "None". +316: Standard output was as expected. +316: 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+)?") +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+)?") +318: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example2. +308/407 Test #314: test_demo_tutorial_realignment_step1 .............................................. Passed 0.23 sec test 328 - Start 328: test_demo_tutorial_sam_and_bam_io_solution2 + Start 328: test_demo_tutorial_seed_and_extend_example6 -328: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout" +328: 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_example6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout" 328: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 328: Test timeout computed to be: 10000000 -287/414 Test #295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.36 sec -288/414 Test #300: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.30 sec -289/414 Test #301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.29 sec -290/414 Test #303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.26 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. -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. -291/414 Test #292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.38 sec -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. -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+)?") -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. +323: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example1. +323: Return code was 0. +323: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout", "None". +318: Return code was 0. +318: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout", "None". +318: Standard output was as expected. +318: Standard error was as expected. +309/407 Test #317: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.19 sec +323: Standard output was as expected. +323: Standard error was as expected. test 329 - Start 329: test_demo_tutorial_sam_and_bam_io_solution3 + Start 329: test_demo_tutorial_seed_and_extend_example7 -329: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp.stdout" +329: 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_example7" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout" 329: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 329: Test timeout computed to be: 10000000 +321: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution2. +322: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution3. +310/407 Test #316: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.23 sec +311/407 Test #318: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.19 sec test 330 - Start 330: test_demo_tutorial_seed_and_extend_example1 + Start 330: test_demo_tutorial_seed_and_extend_solution1 -330: 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_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout" +330: 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" 330: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 330: Test timeout computed to be: 10000000 test 331 - Start 331: test_demo_tutorial_seed_and_extend_example2 + Start 331: test_demo_tutorial_seed_and_extend_solution2 -331: 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_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout" +331: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout" 331: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 331: Test timeout computed to be: 10000000 +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+)?") +321: Return code was 0. +321: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout", "None". +321: Standard output was as expected. +321: 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+)?") +320: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1. +312/407 Test #323: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.14 sec test 332 - Start 332: test_demo_tutorial_seed_and_extend_example3 + Start 332: test_demo_tutorial_seed_and_extend_solution3 -332: 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_example3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp.stdout" +332: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout" 332: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 332: Test timeout computed to be: 10000000 +320: Return code was 0. +320: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout", "None". +320: Standard output was as expected. +320: Standard error was as expected. +322: Return code was 0. +322: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp.stdout", "None". +322: Standard output was as expected. +322: Standard error was as expected. +325: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example3. +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+)?") +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+)?") +313/407 Test #321: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.19 sec test 333 - Start 333: test_demo_tutorial_seed_and_extend_example4 + Start 333: test_demo_tutorial_seed_and_extend_solution4 -333: 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_example4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout" +333: 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_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout" 333: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 333: Test timeout computed to be: 10000000 -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+)?") -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. -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. -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+)?") -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. -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. -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. -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. -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 -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 -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+)?") -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. -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. -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. -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+)?") -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. -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+)?") -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. -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. -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. -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. -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. -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. -292/414 Test #288: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.46 sec -293/414 Test #293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.66 sec -294/414 Test #296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.64 sec -295/414 Test #297: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.63 sec -296/414 Test #302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.56 sec -297/414 Test #304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.52 sec -298/414 Test #305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.48 sec -299/414 Test #306: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.48 sec -300/414 Test #307: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.47 sec -301/414 Test #308: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.46 sec -302/414 Test #309: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.45 sec -303/414 Test #310: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.45 sec -304/414 Test #311: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.44 sec -305/414 Test #312: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.42 sec +324: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example2. +325: Return code was 0. +325: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp.stdout", "None". +319: Return code was 0. +319: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout", "None". +319: Standard output was as expected. +319: 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+)?") +314/407 Test #322: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.20 sec +325: Standard output was as expected. +325: Standard error was as expected. test 334 - Start 334: test_demo_tutorial_seed_and_extend_example5 + Start 334: test_demo_tutorial_seed_and_extend_solution5 -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: 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_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.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 +326: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example4. +315/407 Test #320: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.25 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+)?") test 335 - Start 335: test_demo_tutorial_seed_and_extend_example6 + Start 335: test_demo_tutorial_seed_and_extend_solution6 -335: 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_example6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout" +335: 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" 335: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 335: Test timeout computed to be: 10000000 +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+)?") +324: Return code was 0. +324: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout", "None". +324: Standard output was as expected. +324: Standard error was as expected. +327: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5. +316/407 Test #319: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.28 sec test 336 - Start 336: test_demo_tutorial_seed_and_extend_example7 + Start 336: test_demo_tutorial_seeds_example1 -336: 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_example7" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout" +336: 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_seeds_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout" 336: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 336: Test timeout computed to be: 10000000 +326: Return code was 0. +326: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout", "None". +326: Standard output was as expected. +326: Standard error was as expected. +329: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example7. +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+)?") +330: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1. +327: Return code was 0. +327: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout", "None". +327: Standard output was as expected. +327: Standard error was as expected. +317/407 Test #324: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.22 sec +318/407 Test #325: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.20 sec test 337 - Start 337: test_demo_tutorial_seed_and_extend_solution1 + Start 337: test_demo_tutorial_sequence_io_base -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: 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_sequence_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.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 test 338 - Start 338: test_demo_tutorial_seed_and_extend_solution2 + Start 338: test_demo_tutorial_sequence_io_example1 -338: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout" +338: 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_sequence_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout" 338: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 338: 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: /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: Return code was 0. +330: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout", "None". +330: Standard output was as expected. +330: Standard error was as expected. +329: Return code was 0. +329: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout", "None". +329: Standard output was as expected. +329: Standard error was as expected. +332: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution3. +332: Return code was 0. +332: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout", "None". +332: Standard output was as expected. +332: Standard error was as expected. +328: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example6. +328: Return code was 0. +328: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout", "None". +328: Standard output was as expected. +328: Standard error was as expected. +78: test_parallel_thread_pool_destruct OK +78: test_parallel_enumerable_thread_local_construct OK +78: test_parallel_enumerable_thread_local_local OK +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+)?") +319/407 Test #326: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.22 sec +320/407 Test #327: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.21 sec +321/407 Test #329: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.18 sec +322/407 Test #330: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.16 sec +323/407 Test #332: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.14 sec test 339 - Start 339: test_demo_tutorial_seed_and_extend_solution3 + Start 339: test_demo_tutorial_sequence_io_solution1 -339: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout" +339: 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_sequence_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout" 339: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 339: Test timeout computed to be: 10000000 test 340 - Start 340: test_demo_tutorial_seed_and_extend_solution4 + Start 340: test_demo_tutorial_sequence_io_solution2 -340: 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_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout" +340: 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_sequence_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout" 340: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 340: Test timeout computed to be: 10000000 test 341 - Start 341: test_demo_tutorial_seed_and_extend_solution5 + Start 341: test_demo_tutorial_sequence_io_solution3 -341: 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_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout" +341: 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_sequence_io_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout" 341: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 341: Test timeout computed to be: 10000000 test 342 - Start 342: test_demo_tutorial_seed_and_extend_solution6 + Start 342: test_demo_tutorial_sequence_io_solution4 -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: 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_sequence_io_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.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 test 343 - Start 343: test_demo_tutorial_seeds_example1 + Start 343: test_demo_tutorial_sequences_assignment_1_solution -343: 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_seeds_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout" +343: 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_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp.stdout" 343: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 343: Test timeout computed to be: 10000000 +78: test_parallel_enumerable_thread_local_enumerate OK +78: test_parallel_enumerable_thread_local_combine_unary OK +78: test_parallel_enumerable_thread_local_combine_binary OK +78: ************************************** +78: Total Tests: 29 +78: Skipped: 0 +78: Errors: 0 +78: ************************************** +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_solution6. +333: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution4. +333: Return code was 0. +333: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout", "None". +333: Standard output was as expected. +333: 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_solution2. +331: Return code was 0. +331: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout", "None". +331: Standard output was as expected. +331: 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_solution5. +334: Return code was 0. +334: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout", "None". +334: Standard output was as expected. +334: 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+)?") +61: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +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+)?") +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+)?") +324/407 Test #78: test_test_parallel ................................................................ Passed 6.74 sec +325/407 Test #328: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.28 sec +326/407 Test #333: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.20 sec +327/407 Test #334: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.18 sec test 344 - Start 344: test_demo_tutorial_sequence_io_base + Start 344: test_demo_tutorial_sequences_assignment_2_solution -344: 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_sequence_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout" +344: 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" 344: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 344: Test timeout computed to be: 10000000 test 345 - Start 345: test_demo_tutorial_sequence_io_example1 + Start 345: test_demo_tutorial_sequences_assignment_3_solution -345: 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_sequence_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout" +345: 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_3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout" 345: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 345: Test timeout computed to be: 10000000 test 346 - Start 346: test_demo_tutorial_sequence_io_solution1 + Start 346: test_demo_tutorial_sequences_assignment_4_solution -346: 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_sequence_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout" +346: 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_4_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout" 346: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 346: Test timeout computed to be: 10000000 test 347 - Start 347: test_demo_tutorial_sequence_io_solution2 + Start 347: test_demo_tutorial_sequences_assignment_5_solution -347: 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_sequence_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout" +347: 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_5_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout" 347: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 347: Test timeout computed to be: 10000000 -306/414 Test #313: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.50 sec -307/414 Test #314: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.51 sec -308/414 Test #315: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.51 sec -309/414 Test #316: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.50 sec -310/414 Test #317: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.50 sec -311/414 Test #318: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.49 sec -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. -312/414 Test #325: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.44 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. -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. -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. -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. -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. -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. -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. -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+)?") -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. -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -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+)?") -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. -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. -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+)?") -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. -313/414 Test #331: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.39 sec -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". -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. +335: Return code was 0. +335: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout", "None". +335: Standard output was as expected. +335: 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+)?") +337: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base. +328/407 Test #331: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.29 sec test 348 - Start 348: test_demo_tutorial_sequence_io_solution3 + Start 348: test_demo_tutorial_sequences_assignment_6_solution -348: 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_sequence_io_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout" +348: 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_6_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout" 348: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 348: Test timeout computed to be: 10000000 +108: InputStreamTest_Get type parameter std::basic_fstream > OK +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+)?") +336: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1. +338: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1. +337: Return code was 0. +337: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout", "None". +337: Standard output was as expected. +337: 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+)?") +329/407 Test #335: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.24 sec test 349 - Start 349: test_demo_tutorial_sequence_io_solution4 + Start 349: test_demo_tutorial_sequences_example_comparisons -349: 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_sequence_io_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout" +349: 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_comparisons" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout" 349: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 349: Test timeout computed to be: 10000000 +336: Return code was 0. +336: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout", "None". +336: Standard output was as expected. +336: Standard error was as expected. +340: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution2. +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+)?") +330/407 Test #337: test_demo_tutorial_sequence_io_base ............................................... Passed 0.22 sec test 350 - Start 350: test_demo_tutorial_sequences_assignment_1_solution + Start 350: test_demo_tutorial_sequences_example_conversions_copy -350: 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_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp.stdout" +350: 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" 350: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 350: Test timeout computed to be: 10000000 +338: Return code was 0. +338: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout", "None". +338: Standard output was as expected. +338: 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+)?") +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+)?") +340: Return code was 0. +340: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout", "None". +340: Standard output was as expected. +340: Standard error was as expected. +331/407 Test #336: test_demo_tutorial_seeds_example1 ................................................. Passed 0.26 sec test 351 - Start 351: test_demo_tutorial_sequences_assignment_2_solution + Start 351: test_demo_tutorial_sequences_example_conversions_move -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: 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_move" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.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 +339: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1. +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+)?") +343: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_1_solution. +339: Return code was 0. +339: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout", "None". +339: Standard output was as expected. +339: 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+)?") +332/407 Test #338: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.24 sec +333/407 Test #340: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.20 sec test 352 - Start 352: test_demo_tutorial_sequences_assignment_3_solution + Start 352: test_demo_tutorial_sequences_example_functionality1 -352: 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_3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout" +352: 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_functionality1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout" 352: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 352: Test timeout computed to be: 10000000 test 353 - Start 353: test_demo_tutorial_sequences_assignment_4_solution + Start 353: test_demo_tutorial_sequences_example_functionality2 -353: 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_4_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout" +353: 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_functionality2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp.stdout" 353: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 353: Test timeout computed to be: 10000000 +342: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution4. +342: Return code was 0. +342: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout", "None". +342: Standard output was as expected. +342: Standard error was as expected. +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +343: Return code was 0. +343: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp.stdout", "None". +343: Standard output was as expected. +343: 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+)?") +346: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_4_solution. +334/407 Test #339: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.26 sec +335/407 Test #343: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.20 sec test 354 - Start 354: test_demo_tutorial_sequences_assignment_5_solution + Start 354: test_demo_tutorial_sequences_example_segments -354: 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_5_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout" +354: 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_segments" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout" 354: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 354: Test timeout computed to be: 10000000 test 355 - Start 355: test_demo_tutorial_sequences_assignment_6_solution + Start 355: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -355: 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_6_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout" +355: 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_assignment_exact_generous_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout" 355: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 355: Test timeout computed to be: 10000000 -314/414 Test #319: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.56 sec -315/414 Test #321: test_demo_tutorial_realignment_step1 .............................................. Passed 0.54 sec -316/414 Test #320: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.55 sec -317/414 Test #323: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.53 sec -318/414 Test #324: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.52 sec -319/414 Test #326: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.51 sec -320/414 Test #328: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.49 sec -321/414 Test #327: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.50 sec -322/414 Test #329: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.48 sec -323/414 Test #330: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.47 sec -324/414 Test #332: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.45 sec -325/414 Test #333: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.45 sec -115: VStreamTest_Compression type parameter seqan::Tag OK -115: VStreamTest_Compression type parameter seqan::Tag OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -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. -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. -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. -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. -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+)?") -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. -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. +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+)?") +344: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_2_solution. +346: Return code was 0. +346: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout", "None". +346: Standard output was as expected. +346: 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+)?") +341: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution3. +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+)?") +345: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_3_solution. +336/407 Test #342: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.24 sec test 356 - Start 356: test_demo_tutorial_sequences_example_comparisons + Start 356: test_demo_tutorial_sequences_in_depth_base -356: 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_comparisons" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout" +356: 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" 356: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 356: Test timeout computed to be: 10000000 +341: Return code was 0. +341: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout", "None". +341: Standard output was as expected. +341: 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+)?") +344: Return code was 0. +344: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp.stdout", "None". +344: Standard output was as expected. +344: Standard error was as expected. +345: Return code was 0. +345: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout", "None". +345: Standard output was as expected. +345: Standard error was as expected. +337/407 Test #346: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.21 sec test 357 - Start 357: test_demo_tutorial_sequences_example_conversions_copy + Start 357: test_demo_tutorial_sequences_in_depth_example_overflow -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: 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" 357: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 357: Test timeout computed to be: 10000000 +349: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_comparisons. +351: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_move. +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+)?") +347: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_5_solution. +338/407 Test #345: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.24 sec test 358 - Start 358: test_demo_tutorial_sequences_example_conversions_move + Start 358: test_demo_tutorial_simple_rna_seq_base -358: 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_move" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.cpp.stdout" +358: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout" 358: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 358: Test timeout computed to be: 10000000 +350: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy. +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+)?") +349: Return code was 0. +349: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout", "None". +349: Standard output was as expected. +349: Standard error was as expected. +339/407 Test #341: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.31 sec +340/407 Test #344: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.27 sec +350: Return code was 0. +350: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout", "None". +350: Standard output was as expected. +350: Standard error was as expected. test 359 - Start 359: test_demo_tutorial_sequences_example_functionality1 + Start 359: test_demo_tutorial_simple_rna_seq_genequant_assignment1 -359: 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_functionality1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout" +359: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout" 359: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 359: Test timeout computed to be: 10000000 test 360 - Start 360: test_demo_tutorial_sequences_example_functionality2 + Start 360: test_demo_tutorial_simple_rna_seq_genequant_assignment2 -360: 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_functionality2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp.stdout" +360: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout" 360: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 360: Test timeout computed to be: 10000000 +351: Return code was 0. +351: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.cpp.stdout", "None". +351: Standard output was as expected. +351: Standard error was as expected. +347: Return code was 0. +347: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout", "None". +347: Standard output was as expected. +347: Standard error was as expected. +348: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_6_solution. +348: Return code was 0. +348: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout", "None". +348: Standard output was as expected. +348: 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+)?") +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+)?") +353: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality2. +341/407 Test #347: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.28 sec +342/407 Test #349: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.24 sec +343/407 Test #350: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.22 sec +344/407 Test #351: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.20 sec test 361 - Start 361: test_demo_tutorial_sequences_example_segments + Start 361: test_demo_tutorial_simple_rna_seq_genequant_assignment3 -361: 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_segments" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout" +361: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout" 361: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 361: Test timeout computed to be: 10000000 test 362 - Start 362: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution + Start 362: test_demo_tutorial_simple_rna_seq_genequant_assignment4 -362: 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_assignment_exact_generous_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout" +362: 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" 362: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 362: Test timeout computed to be: 10000000 test 363 - Start 363: test_demo_tutorial_sequences_in_depth_base + Start 363: test_demo_tutorial_simple_rna_seq_genequant_assignment5 -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: 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" 363: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 363: Test timeout computed to be: 10000000 test 364 - Start 364: test_demo_tutorial_sequences_in_depth_example_overflow + Start 364: test_demo_tutorial_simple_rna_seq_genequant_solution1 -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: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.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 +353: Return code was 0. +353: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.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_in_depth_base. +356: Return code was 0. +356: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout", "None". +356: Standard output was as expected. +356: Standard error was as expected. +352: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality1. +352: Return code was 0. +352: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout", "None". +352: Standard output was as expected. +352: 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_in_depth_example_overflow. +354: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_segments. +354: Return code was 0. +354: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout", "None". +354: Standard output was as expected. +354: Standard error was as expected. +355: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution. +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+)?") +345/407 Test #348: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.33 sec +346/407 Test #352: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.25 sec +347/407 Test #353: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.23 sec +348/407 Test #354: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.21 sec test 365 - Start 365: test_demo_tutorial_simple_rna_seq_base + Start 365: test_demo_tutorial_simple_rna_seq_genequant_solution2 -365: 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_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout" +365: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout" 365: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 365: Test timeout computed to be: 10000000 test 366 - Start 366: test_demo_tutorial_simple_rna_seq_genequant_assignment1 + Start 366: test_demo_tutorial_simple_rna_seq_genequant_solution3 -366: 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_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout" +366: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout" 366: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 366: Test timeout computed to be: 10000000 test 367 - Start 367: test_demo_tutorial_simple_rna_seq_genequant_assignment2 + Start 367: test_demo_tutorial_simple_rna_seq_genequant_solution4 -367: 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_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout" +367: 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_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout" 367: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 367: Test timeout computed to be: 10000000 -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. -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. -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. -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. -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. -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. -84: test_parallel_thread_pool_join OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -326/414 Test #334: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.31 sec -327/414 Test #335: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.30 sec -328/414 Test #337: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.29 sec -329/414 Test #339: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.27 sec test 368 - Start 368: test_demo_tutorial_simple_rna_seq_genequant_assignment3 + Start 368: test_demo_tutorial_simple_rna_seq_genequant_solution5 -368: 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_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout" +368: 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_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout" 368: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 368: Test timeout computed to be: 10000000 +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_simple_rna_seq_genequant_assignment2. +357: Return code was 0. +357: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp.stdout", "None". +357: Standard output was as expected. +357: 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+)?") +358: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base. +358: Return code was 0. +358: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout", "None". +358: Standard output was as expected. +358: 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+)?") +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+)?") +349/407 Test #356: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.23 sec +350/407 Test #357: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.21 sec test 369 - Start 369: test_demo_tutorial_simple_rna_seq_genequant_assignment4 + Start 369: test_demo_tutorial_simple_rna_seq_interval_tree -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: 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_interval_tree" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.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 test 370 - Start 370: test_demo_tutorial_simple_rna_seq_genequant_assignment5 + Start 370: test_demo_tutorial_string_sets_assignment_1_solution -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: 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_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.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 +361: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment3. +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+)?") +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+)?") +360: Return code was 0. +360: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout", "None". +360: Standard output was as expected. +360: Standard error was as expected. +362: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment4. +351/407 Test #358: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.22 sec test 371 - Start 371: test_demo_tutorial_simple_rna_seq_genequant_solution1 + Start 371: test_demo_tutorial_string_sets_assignment_2 -371: 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_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout" +371: 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_assignment_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp.stdout" 371: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 371: Test timeout computed to be: 10000000 -330/414 Test #340: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.30 sec -331/414 Test #345: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.30 sec -332/414 Test #342: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.32 sec -333/414 Test #344: test_demo_tutorial_sequence_io_base ............................................... Passed 0.30 sec -334/414 Test #346: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.29 sec -335/414 Test #341: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.32 sec -336/414 Test #343: test_demo_tutorial_seeds_example1 ................................................. Passed 0.32 sec -337/414 Test #347: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.29 sec -338/414 Test #336: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.36 sec -339/414 Test #338: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.35 sec -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. -340/414 Test #348: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.24 sec -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. -341/414 Test #351: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.22 sec -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". -350: Standard output was as expected. -350: 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. -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. -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: /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. -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. -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. -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. -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. -342/414 Test #357: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.16 sec -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. -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. -360: Return code was 0. -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. +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+)?") +361: Return code was 0. +361: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout", "None". +361: Standard output was as expected. +361: Standard error was as expected. +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+)?") +352/407 Test #360: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.19 sec test 372 - Start 372: test_demo_tutorial_simple_rna_seq_genequant_solution2 + Start 372: test_demo_tutorial_string_sets_assignment_2_solution -372: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout" +372: 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_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout" 372: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 372: Test timeout computed to be: 10000000 +359: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment1. +364: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution1. +363: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment5. +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+)?") +353/407 Test #361: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.20 sec test 373 - Start 373: test_demo_tutorial_simple_rna_seq_genequant_solution3 + Start 373: test_demo_tutorial_string_sets_assignment_3_workshop_solution -373: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout" +373: 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_assignment_3_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout" 373: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 373: Test timeout computed to be: 10000000 +359: Return code was 0. +359: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout", "None". +359: Standard output was as expected. +359: Standard error was as expected. +364: Return code was 0. +364: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout", "None". +364: Standard output was as expected. +364: Standard error was as expected. +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+)?") +365: 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_solution3. +362: Return code was 0. +362: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp.stdout", "None". +362: Standard output was as expected. +362: 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+)?") +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+)?") +354/407 Test #364: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.22 sec test 374 - Start 374: test_demo_tutorial_simple_rna_seq_genequant_solution4 + Start 374: test_demo_tutorial_string_sets_assignment_4_workshop_solution -374: 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_solution4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout" +374: 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_assignment_4_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout" 374: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 374: Test timeout computed to be: 10000000 +365: Return code was 0. +365: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout", "None". +365: Standard output was as expected. +365: Standard error was as expected. +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+)?") +108: InputStreamTest_Get type parameter std::basic_ifstream > OK +108: InputStreamTest_Eof type parameter std::basic_fstream > OK +108: InputStreamTest_Eof type parameter std::basic_ifstream > OK +108: OutputStreamTest_Open type parameter std::basic_fstream > OK +367: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution4. +355/407 Test #359: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.34 sec +356/407 Test #362: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.29 sec test 375 - Start 375: test_demo_tutorial_simple_rna_seq_genequant_solution5 + Start 375: test_demo_tutorial_string_sets_example_functionality -375: 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_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout" +375: 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" 375: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 375: Test timeout computed to be: 10000000 test 376 - Start 376: test_demo_tutorial_simple_rna_seq_interval_tree + Start 376: test_demo_tutorial_string_sets_example_functionality_2 -376: 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_interval_tree" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout" +376: 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" 376: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 376: Test timeout computed to be: 10000000 +368: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution5. +363: Return code was 0. +363: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout", "None". +363: Standard output was as expected. +363: Standard error was as expected. +366: Return code was 0. +366: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout", "None". +366: Standard output was as expected. +366: Standard error was as expected. +370: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution. +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+)?") +369: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree. +108: OutputStreamTest_Open type parameter std::basic_ofstream > OK +108: OutputStreamTest_Put type parameter std::basic_fstream > OK +108: OutputStreamTest_Put type parameter std::basic_ofstream > OK +108: InputStreamTest_Tell type parameter std::basic_fstream > OK +108: InputStreamTest_Tell type parameter std::basic_ifstream > OK +108: OutputStreamTest_Tell type parameter std::basic_fstream > OK +108: OutputStreamTest_Tell type parameter std::basic_ofstream > OK +371: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2. +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+)?") +357/407 Test #365: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.28 sec +358/407 Test #366: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.27 sec test 377 - Start 377: test_demo_tutorial_string_sets_assignment_1_solution + Start 377: test_demo_tutorial_string_sets_example_iterators -377: 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_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout" +377: 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" 377: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 377: Test timeout computed to be: 10000000 test 378 - Start 378: test_demo_tutorial_string_sets_assignment_2 + Start 378: test_demo_tutorial_vcf_io_base -378: 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_assignment_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp.stdout" +378: 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" 378: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 378: Test timeout computed to be: 10000000 +370: Return code was 0. +370: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout", "None". +370: Standard output was as expected. +370: Standard error was as expected. +369: Return code was 0. +369: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout", "None". +369: Standard output was as expected. +369: Standard error was as expected. +371: Return code was 0. +371: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp.stdout", "None". +371: Standard output was as expected. +371: Standard error was as expected. +359/407 Test #363: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.38 sec test 379 - Start 379: test_demo_tutorial_string_sets_assignment_2_solution + Start 379: test_demo_tutorial_vcf_io_example1 -379: 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_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout" +379: 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" 379: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 379: Test timeout computed to be: 10000000 +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+)?") +108: ************************************** +108: Total Tests: 213 +108: Skipped: 0 +108: Errors: 0 +108: ************************************** +61: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +372: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2_solution. +360/407 Test #108: test_test_stream .................................................................. Passed 6.62 sec +361/407 Test #369: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.30 sec +362/407 Test #370: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.28 sec +363/407 Test #371: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.27 sec test 380 - Start 380: test_demo_tutorial_string_sets_assignment_3_workshop_solution + Start 380: test_demo_tutorial_vcf_io_solution1 -380: 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_assignment_3_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout" +380: 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" 380: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 380: Test timeout computed to be: 10000000 test 381 - Start 381: test_demo_tutorial_string_sets_assignment_4_workshop_solution + Start 381: test_demo_tutorial_vcf_io_solution2 -381: 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_assignment_4_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout" +381: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout" 381: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 381: Test timeout computed to be: 10000000 test 382 - Start 382: test_demo_tutorial_string_sets_example_functionality + Start 382: test_demo_tutorial_vcf_io_solution3 -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: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.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 + Start 383: app_test_bs_tools -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/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" +383: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools 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 -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. -358: Return code was 0. -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. -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. -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. -364: Return code was 0. -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. -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. -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. -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. +368: Return code was 0. +368: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout", "None". +368: Standard output was as expected. +368: Standard error was as expected. 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: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout", "None". 367: Standard output was as expected. 367: Standard error was as expected. -343/414 Test #349: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.36 sec -344/414 Test #350: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.36 sec -345/414 Test #352: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.35 sec -346/414 Test #353: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.34 sec -347/414 Test #354: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.33 sec -348/414 Test #355: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.33 sec -349/414 Test #356: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.30 sec -350/414 Test #358: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.28 sec -351/414 Test #359: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.27 sec +373: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_3_workshop_solution. +373: Return code was 0. +373: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout", "None". +373: Standard output was as expected. +373: Standard error was as expected. +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+)?") +375: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality. +375: Return code was 0. +375: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp.stdout", "None". +375: Standard output was as expected. +375: Standard error was as expected. +372: Return code was 0. +372: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout", "None". +372: Standard output was as expected. +372: 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+)?") +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+)?") +364/407 Test #367: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.40 sec +365/407 Test #368: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.39 sec +366/407 Test #372: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.32 sec +367/407 Test #373: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.30 sec +368/407 Test #375: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.20 sec +test 384 + Start 384: app_test_dfi + +384: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi/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" +384: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi +384: Test timeout computed to be: 10000000 test 385 - Start 385: test_demo_tutorial_vcf_io_base + Start 385: app_test_fiona -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/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" +385: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona 385: Test timeout computed to be: 10000000 test 386 - Start 386: test_demo_tutorial_vcf_io_example1 + Start 386: app_test_gustaf -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/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" +386: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf 386: Test timeout computed to be: 10000000 test 387 - Start 387: test_demo_tutorial_vcf_io_solution1 + Start 387: app_test_insegt -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/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" +387: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt 387: Test timeout computed to be: 10000000 test 388 - Start 388: test_demo_tutorial_vcf_io_solution2 + Start 388: app_test_micro_razers -388: 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_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout" -388: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +388: 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" +388: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers 388: Test timeout computed to be: 10000000 +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_vcf_io_solution1. +380: Return code was 0. +380: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout", "None". +380: Standard output was as expected. +380: 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_example_iterators. +377: Return code was 0. +377: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout", "None". +377: Standard output was as expected. +377: 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+)?") +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: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1. +379: Return code was 0. +379: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.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+)?") +374: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_4_workshop_solution. +374: Return code was 0. +374: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout", "None". +374: Standard output was as expected. +374: Standard error was as expected. +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+)?") +369/407 Test #377: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.21 sec test 389 - Start 389: test_demo_tutorial_vcf_io_solution3 + Start 389: app_test_ngs_roi -389: 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_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp.stdout" -389: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +389: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/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" +389: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi 389: Test timeout computed to be: 10000000 +370/407 Test #380: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.17 sec test 390 - Start 390: app_test_bs_tools + Start 390: app_test_pair_align -390: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/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" -390: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools +390: 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" +390: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align 390: Test timeout computed to be: 10000000 +381: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution2. +378: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base. +371/407 Test #379: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.21 sec test 391 - Start 391: app_test_dfi + Start 391: test_test_funcs_param_chooser -391: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi/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" -391: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi +391: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_funcs_param_chooser +391: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser 391: Test timeout computed to be: 10000000 +376: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2. +378: Return code was 0. +378: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout", "None". +378: Standard output was as expected. +378: Standard error was as expected. +382: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution3. +381: Return code was 0. +381: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout", "None". +381: Standard output was as expected. +381: Standard error was as expected. +372/407 Test #374: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.38 sec test 392 - Start 392: app_test_fiona + Start 392: app_test_rabema -392: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/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" -392: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona +392: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/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" +392: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema 392: Test timeout computed to be: 10000000 +391: TEST SUITE test_param_chooser +391: SEQAN_ENABLE_DEBUG == 1 +391: SEQAN_ENABLE_TESTING == 1 +391: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +391: SEQAN_ASYNC_IO == 1 +391: test_param_chooser_quality_distribution_from_prb_file OK +391: test_param_chooser_quality_distribution_from_fastq_file OK +391: test_param_chooser_parse_gapped_params OK +391: test_param_parse_shapes_from_file OK +391: ************************************** +391: Total Tests: 4 +391: Skipped: 0 +391: Errors: 0 +391: ************************************** +376: Return code was 0. +376: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout", "None". +376: Standard output was as expected. +376: Standard error was as expected. +373/407 Test #378: test_demo_tutorial_vcf_io_base .................................................... Passed 0.28 sec +374/407 Test #391: test_test_funcs_param_chooser ..................................................... Passed 0.04 sec +375/407 Test #381: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.23 sec test 393 - Start 393: app_test_gustaf + Start 393: app_test_razers -393: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/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" -393: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf +393: 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" +393: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers 393: Test timeout computed to be: 10000000 -352/414 Test #363: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.32 sec -353/414 Test #364: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.32 sec -354/414 Test #361: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.34 sec -355/414 Test #365: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.32 sec -356/414 Test #367: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.30 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. -357/414 Test #366: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.30 sec -358/414 Test #360: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.36 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. -359/414 Test #368: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.28 sec -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. -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. -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. -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. -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. -360/414 Test #371: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.26 sec -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. -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. -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. -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. -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. test 394 - Start 394: app_test_insegt + Start 394: app_test_razers3 -394: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/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" -394: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt +394: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/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" +394: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 394: Test timeout computed to be: 10000000 test 395 - Start 395: app_test_micro_razers + Start 395: app_test_razers3_sequential -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/run_tests_sequential.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/razers3 395: Test timeout computed to be: 10000000 +382: Return code was 0. +382: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp.stdout", "None". +382: Standard output was as expected. +382: Standard error was as expected. +376/407 Test #376: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.40 sec +377/407 Test #382: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.26 sec test 396 - Start 396: app_test_ngs_roi + Start 396: app_test_sak -396: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/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" -396: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi +396: 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" +396: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak 396: Test timeout computed to be: 10000000 test 397 - Start 397: app_test_pair_align + Start 397: app_test_sam2matrix -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/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/sam2matrix 397: Test timeout computed to be: 10000000 +387: DELETING TEMP DIR /tmp/tmpz1nutx0l +387: Executing test for insegt +387: ========================= +387: +387: insegt -ro /tmp/tmpz1nutx0l/default_readOutput.gff -ao /tmp/tmpz1nutx0l/default_annoOutput.gff -to /tmp/tmpz1nutx0l/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 +387: insegt -c 2 -ro /tmp/tmpz1nutx0l/threshold-count2_readOutput.gff -ao /tmp/tmpz1nutx0l/threshold-count2_annoOutput.gff -to /tmp/tmpz1nutx0l/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 +387: insegt -n 3 -ro /tmp/tmpz1nutx0l/ntuple3_readOutput.gff -ao /tmp/tmpz1nutx0l/ntuple3_annoOutput.gff -to /tmp/tmpz1nutx0l/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 +387: insegt -m -ro /tmp/tmpz1nutx0l/max-tuple_readOutput.gff -ao /tmp/tmpz1nutx0l/max-tuple_annoOutput.gff -to /tmp/tmpz1nutx0l/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 +387: insegt -e -ro /tmp/tmpz1nutx0l/exact-ntuple_readOutput.gff -ao /tmp/tmpz1nutx0l/exact-ntuple_annoOutput.gff -to /tmp/tmpz1nutx0l/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 +387: ============================== +387: total tests: 5 +387: failed tests: 0 +387: successful tests: 5 +387: ============================== +315: Return code was 0. +315: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout", "None". +315: Standard output was as expected. +315: Standard error was as expected. +378/407 Test #315: test_demo_tutorial_realignment_step2 .............................................. Passed 1.72 sec test 398 - Start 398: test_test_funcs_param_chooser + Start 398: app_test_samcat -398: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_funcs_param_chooser -398: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser +398: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/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" +398: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat 398: Test timeout computed to be: 10000000 +379/407 Test #387: app_test_insegt ................................................................... Passed 0.38 sec test 399 - Start 399: app_test_rabema + Start 399: app_test_searchjoin -399: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/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" -399: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema +399: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/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" +399: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin 399: Test timeout computed to be: 10000000 +397: DELETING TEMP DIR /tmp/tmpjpayshih +397: Executing test for sam2matrix +397: ============================= +397: +397: 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/tmpjpayshih/test_sam2matrix.tsv OK +397: ============================== +397: total tests: 1 +397: failed tests: 0 +397: successful tests: 1 +397: ============================== +380/407 Test #397: app_test_sam2matrix ............................................................... Passed 0.27 sec test 400 - Start 400: app_test_razers + Start 400: app_test_seqan_tcoffee -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/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/seqan_tcoffee 400: Test timeout computed to be: 10000000 +396: DELETING TEMP DIR /tmp/tmp_3gx4h9r +396: Executing test for sak +396: ====================== +396: +396: /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/tmp_3gx4h9r/adeno.all.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.seq1.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.seq1-2.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.seq3.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.sn.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.s1i5-25.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.s1-2i5-25.fa +396: OK +396: /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/tmp_3gx4h9r/adeno.s1rc.fa +396: OK +396: ============================== +396: total tests: 8 +396: failed tests: 0 +396: successful tests: 8 +396: ============================== +381/407 Test #396: app_test_sak ...................................................................... Passed 0.39 sec test 401 - Start 401: app_test_razers3 + Start 401: app_test_seqcons2 -401: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/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" -401: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 +401: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/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" +401: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 401: Test timeout computed to be: 10000000 +61: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +61: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +61: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +386: DELETING TEMP DIR /tmp/tmpqtd6dyln +386: Executing test for gustaf +386: =============================== +386: +386: 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/tmpqtd6dyln/adeno_modified_reads_joinedMates.fa -rc OK +386: 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/tmpqtd6dyln/reads_simulated_joined_rc.fa -rc OK +386: 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/tmpqtd6dyln/reads_simulated_joined.fa OK +386: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpqtd6dyln/reads_simulated_mates1_rc.fa -o /tmp/tmpqtd6dyln/reads_simulated_mates2_rc.fa -rc OK +386: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpqtd6dyln/reads_simulated_mates1.fa -o /tmp/tmpqtd6dyln/reads_simulated_mates2.fa OK +386: 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/tmpqtd6dyln/st2_l100.gff -vcf /tmp/tmpqtd6dyln/st2_l100.vcf OK +386: 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/tmpqtd6dyln/st1_l30.gff -vcf /tmp/tmpqtd6dyln/st1_l30.vcf -st 1 -l 30 OK +386: 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/tmpqtd6dyln/st1_l30_m.gff -vcf /tmp/tmpqtd6dyln/st1_l30_m.vcf -st 1 OK +386: 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/tmpqtd6dyln/st1_l30_ith5.gff -vcf /tmp/tmpqtd6dyln/st1_l30_ith5.vcf -st 1 -l 30 -ith 5 -bth 5 OK +386: 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/tmpqtd6dyln/st1_l30_gth3.gff -vcf /tmp/tmpqtd6dyln/st1_l30_gth3.vcf -st 1 -l 30 -gth 3 OK +386: 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/tmpqtd6dyln/pairedEnd_st1_l30.gff -vcf /tmp/tmpqtd6dyln/pairedEnd_st1_l30.vcf -st 1 -mst 1 -ll 1000 -le 100 -rc OK +386: 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/tmpqtd6dyln/reference2_st1_l30.gff -vcf /tmp/tmpqtd6dyln/reference2_st1_l30.vcf -st 1 -l 30 OK +386: ============================== +386: total tests: 12 +386: failed tests: 0 +386: successful tests: 12 +386: ============================== +382/407 Test #386: app_test_gustaf ................................................................... Passed 0.83 sec test 402 - Start 402: app_test_razers3_sequential + Start 402: app_test_sgip -402: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/run_tests_sequential.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" -402: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 +402: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/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" +402: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip 402: Test timeout computed to be: 10000000 -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. -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. -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. -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. -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. -361/414 Test #369: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.38 sec -362/414 Test #370: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.38 sec -363/414 Test #373: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.32 sec -364/414 Test #377: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.28 sec -365/414 Test #380: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.26 sec -366/414 Test #383: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.24 sec +355: Return code was 0. +355: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout", "None". +355: Standard output was as expected. +355: Standard error was as expected. +398: DELETING TEMP DIR /tmp/tmpwl9znwlg +398: Executing test for samcat +398: ========================= +398: +398: /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/tmpwl9znwlg/ex1_merged.sam +398: OK +398: /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/tmpwl9znwlg/ex1_merged.bam +398: OK +398: ============================== +398: total tests: 2 +398: failed tests: 0 +398: successful tests: 2 +398: ============================== +389: DELETING TEMP DIR /tmp/tmppxqnlogi +389: Executing test for roi_intersect +389: ================================ +389: +389: 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/tmppxqnlogi/out_small_bed_mprojection_ss.roi OK +389: 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/tmppxqnlogi/out_small_bed_mprojection.roi OK +389: 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/tmppxqnlogi/out_small_gff_mprojection_ss.roi OK +389: 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/tmppxqnlogi/out_small_gff_mprojection.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mprojection_ss.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mprojection.roi OK +389: 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/tmppxqnlogi/out_small_bed_munion_ss.roi OK +389: 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/tmppxqnlogi/out_small_bed_munion.roi OK +389: 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/tmppxqnlogi/out_small_gff_munion_ss.roi OK +389: 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/tmppxqnlogi/out_small_gff_munion.roi OK +389: 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/tmppxqnlogi/out_small_gtf_munion_ss.roi OK +389: 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/tmppxqnlogi/out_small_gtf_munion.roi OK +389: 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/tmppxqnlogi/out_small_bed_mdifference_ss.roi OK +389: 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/tmppxqnlogi/out_small_bed_mdifference.roi OK +389: 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/tmppxqnlogi/out_small_gff_mdifference_ss.roi OK +389: 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/tmppxqnlogi/out_small_gff_mdifference.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mdifference_ss.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mdifference.roi OK +389: 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/tmppxqnlogi/out_small_bed_mintersection_ss.roi OK +389: 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/tmppxqnlogi/out_small_bed_mintersection.roi OK +389: 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/tmppxqnlogi/out_small_gff_mintersection_ss.roi OK +389: 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/tmppxqnlogi/out_small_gff_mintersection.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mintersection_ss.roi OK +389: 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/tmppxqnlogi/out_small_gtf_mintersection.roi OK +389: bam2roi --strand-specific -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmppxqnlogi/out_mrna_2l_ss.roi OK +389: bam2roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmppxqnlogi/out_mrna_2l.roi OK +389: ============================== +389: total tests: 26 +389: failed tests: 0 +389: successful tests: 26 +389: ============================== +383/407 Test #355: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 1.80 sec test 403 - Start 403: app_test_sak + Start 403: app_test_snp_store -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 command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/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/snp_store 403: Test timeout computed to be: 10000000 +384/407 Test #398: app_test_samcat ................................................................... Passed 0.80 sec test 404 - Start 404: app_test_sam2matrix + Start 404: app_test_splazers -404: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/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" -404: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix +404: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/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" +404: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers 404: Test timeout computed to be: 10000000 +385/407 Test #389: app_test_ngs_roi .................................................................. Passed 1.17 sec test 405 - Start 405: app_test_samcat + Start 405: app_test_stellar -405: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/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" -405: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat +405: 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" +405: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar 405: Test timeout computed to be: 10000000 +61: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +61: ************************************** +61: Total Tests: 27 +61: Skipped: 0 +61: Errors: 0 +61: ************************************** +386/407 Test #61: test_test_index_fm ................................................................ Passed 9.48 sec test 406 - Start 406: app_test_searchjoin + Start 406: app_test_tree_recon -406: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/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" -406: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin +406: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/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" +406: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon 406: Test timeout computed to be: 10000000 +390: Executing test for pair_align +390: ============================= +390: +390: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.fa OK +390: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.fa OK +390: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.fa OK +390: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.protein.fa OK +390: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.protein.fa OK +390: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.protein.fa OK +390: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.mnw.fa OK +390: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.mgotoh.fa OK +390: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.msw.fa OK +390: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.mlcs.fa OK +390: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.mnw.fa OK +390: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.mgotoh.fa OK +390: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.msw.fa OK +390: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.mlcs.fa OK +390: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.mnw.fa OK +390: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.mgotoh.fa OK +390: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.msw.fa OK +390: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.mlcs.fa OK +390: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.g-20.fa OK +390: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.e-5.fa OK +390: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.ms10.fa OK +390: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.mm-8.fa OK +390: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.g-20.fa OK +390: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.e-5.fa OK +390: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.ms10.fa OK +390: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.mm-8.fa OK +390: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.g-20.fa OK +390: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.e-5.fa OK +390: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.ms10.fa OK +390: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.mm-8.fa OK +390: 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/tmpv4wbeorb/1aab.maVTML200.fa OK +390: 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/tmpv4wbeorb/1ad2.maVTML200.fa OK +390: 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/tmpv4wbeorb/2trx.maVTML200.fa OK +390: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.lo5.fa OK +390: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.hi5.fa OK +390: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.lo5.fa OK +390: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.hi5.fa OK +390: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.lo5.fa OK +390: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.hi5.fa OK +390: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cffff.fa OK +390: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.ctttt.fa OK +390: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cffft.fa OK +390: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cfftf.fa OK +390: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cftff.fa OK +390: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.ctfff.fa OK +390: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cfftt.fa OK +390: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cfttf.fa OK +390: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.cttff.fa OK +390: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpv4wbeorb/1aab.ctfft.fa OK +390: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cffff.fa OK +390: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.ctttt.fa OK +390: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cffft.fa OK +390: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cfftf.fa OK +390: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cftff.fa OK +390: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.ctfff.fa OK +390: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cfftt.fa OK +390: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cfttf.fa OK +390: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.cttff.fa OK +390: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpv4wbeorb/1ad2.ctfft.fa OK +390: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cffff.fa OK +406: DELETING TEMP DIR /tmp/tmpoc563r1w +406: Executing test for tree_recomb +406: ============================== +406: +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.dot OK +406: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.nj.dot OK +406: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.min.dot OK +406: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.max.dot OK +406: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.wavg.dot OK +406: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.nj.dot OK +406: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.min.dot OK +406: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.max.dot OK +406: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.avg.dot OK +406: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.wavg.dot OK +406: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.nj.dot OK +406: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.min.dot OK +406: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.max.dot OK +406: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.avg.dot OK +406: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.wavg.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpoc563r1w/example1.newick OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpoc563r1w/example2.newick OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.dot OK +406: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpoc563r1w/example3.newick OK +406: ============================== +406: total tests: 23 +406: failed tests: 0 +406: successful tests: 23 +406: ============================== +387/407 Test #406: app_test_tree_recon ............................................................... Passed 0.91 sec test 407 - Start 407: app_test_seqan_tcoffee + Start 407: app_test_yara -407: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/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" -407: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee +407: 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" +407: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara 407: Test timeout computed to be: 10000000 -test 408 - Start 408: app_test_seqcons2 - -408: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/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" -408: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 -408: Test timeout computed to be: 10000000 -367/414 Test #376: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.33 sec -368/414 Test #382: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.29 sec -369/414 Test #381: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.30 sec -370/414 Test #379: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.31 sec -371/414 Test #386: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.24 sec -372/414 Test #372: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.38 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. -373/414 Test #374: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.36 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. -374/414 Test #385: test_demo_tutorial_vcf_io_base .................................................... Passed 0.24 sec -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. -375/414 Test #387: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.23 sec -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. -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. -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. -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. -376/414 Test #375: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.35 sec -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. -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: ************************************** -377/414 Test #398: test_test_funcs_param_chooser ..................................................... Passed 0.11 sec -test 409 - Start 409: app_test_sgip - -409: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/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" -409: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip -409: Test timeout computed to be: 10000000 -test 410 - Start 410: app_test_snp_store - -410: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/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" -410: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store -410: Test timeout computed to be: 10000000 -test 411 - Start 411: app_test_splazers - -411: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/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" -411: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers -411: Test timeout computed to be: 10000000 -test 412 - Start 412: app_test_stellar - -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 -test 413 - Start 413: app_test_tree_recon - -413: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/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" -413: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon -413: Test timeout computed to be: 10000000 -test 414 - Start 414: app_test_yara - -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 -378/414 Test #389: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.29 sec -379/414 Test #322: test_demo_tutorial_realignment_step2 .............................................. Passed 1.18 sec -380/414 Test #378: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.39 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 -381/414 Test #384: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.35 sec -382/414 Test #388: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.30 sec -394: DELETING TEMP DIR /tmp/tmpd0aq9fu2 -394: Executing test for insegt -394: ========================= +390: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.ctttt.faDELETING TEMP DIR /tmp/tmpv4wbeorb +390: OK +390: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cffft.fa OK +390: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cfftf.fa OK +390: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cftff.fa OK +390: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.ctfff.fa OK +390: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cfftt.fa OK +390: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cfttf.fa OK +390: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.cttff.fa OK +390: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpv4wbeorb/2trx.ctfft.fa OK +390: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1.fa -o /tmp/tmpv4wbeorb/adeno1.fa OK +390: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2.fa -o /tmp/tmpv4wbeorb/adeno2.fa OK +390: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3.fa -o /tmp/tmpv4wbeorb/adeno3.fa OK +390: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1-rna.fa -o /tmp/tmpv4wbeorb/adeno1-rna.fa OK +390: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2-rna.fa -o /tmp/tmpv4wbeorb/adeno2-rna.fa OK +390: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3-rna.fa -o /tmp/tmpv4wbeorb/adeno3-rna.fa OK +390: ============================== +390: total tests: 75 +390: failed tests: 0 +390: successful tests: 75 +390: ============================== +407: /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py:25: SyntaxWarning: invalid escape sequence '\.' +407: app_tests.RegexpReplaceTransform("[0-9\.\-e]+ sec", "0.0 sec"), +388/407 Test #390: app_test_pair_align ............................................................... Passed 2.51 sec +407: DELETING TEMP DIR /tmp/tmpf7hpdwl7 +407: Executing test for Yara +407: ============================== +407: +407: /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/tmpf7hpdwl7/adeno-genome OK +407: /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/tmpf7hpdwl7/adeno-reads_1.t1.sam --threads 1 OK +407: ============================== +407: total tests: 2 +407: failed tests: 0 +407: successful tests: 2 +407: ============================== +389/407 Test #407: app_test_yara ..................................................................... Passed 0.41 sec +401: DELETING TEMP DIR /tmp/tmps6lp4sk4 +401: Executing test for seqcons2 +401: =========================== +401: +401: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmps6lp4sk4/alns1.overlap_consensus.fa -oa /tmp/tmps6lp4sk4/alns1.overlap_consensus.sam OK +401: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmps6lp4sk4/alns1.nop.fa -oa /tmp/tmps6lp4sk4/alns1.nop.sam OK +401: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.overlap_consensus.sam -oc /tmp/tmps6lp4sk4/alns1.overlap_consensus.fa OK +401: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.pos_consensus.sam -oc /tmp/tmps6lp4sk4/alns1.pos_consensus.fa OK +401: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.contig_consensus.sam -oc /tmp/tmps6lp4sk4/alns1.contig_consensus.fa OK +401: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.realign.sam -oc /tmp/tmps6lp4sk4/alns1.realign.fa OK +401: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.nop.sam -oc /tmp/tmps6lp4sk4/alns1.nop.fa OK +401: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.overlap_consensus.txt OK +401: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.pos_consensus.txt OK +401: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.contig_consensus.txt OK +401: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.realign.txt OK +401: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmps6lp4sk4/alns1.nop.txt OK +401: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmps6lp4sk4/seqs2.align_consensus.sam -oc /tmp/tmps6lp4sk4/seqs2.align_consensus.fa OK +401: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmps6lp4sk4/seqs2.align_consensus.txt OK +401: ============================== +401: total tests: 14 +401: failed tests: 0 +401: successful tests: 14 +401: ============================== +390/407 Test #401: app_test_seqcons2 ................................................................. Passed 3.62 sec +402: DELETING TEMP DIR /tmp/tmp2xn6a0qd +402: Executing test for sgip +402: ========================= +402: +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B00 -v 2 -i OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A01 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B01 -v 2 -i OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B01 -v 2 -i OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -v 2 OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/latin-4 -v 2 OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/lattice-4 -v 2 OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/paley-5 -v 2 OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/sts-7 -v 2 OK +402: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/triang-5 -v 2 OK +402: ============================== +402: total tests: 9 +402: failed tests: 0 +402: successful tests: 9 +402: ============================== +391/407 Test #402: app_test_sgip ..................................................................... Passed 4.07 sec +400: Executing test for seqan_tcoffee +400: ================================ +400: +400: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.fasta OK +400: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.fasta OK +400: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.fasta OK +400: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.protein.fasta OK +400: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.protein.fasta OK +400: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.protein.fasta OK +400: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mglobal.fasta OK +400: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mlocal.fasta OK +400: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.moverlap.fasta OK +400: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mlcs.fasta OK +400: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mglobal.mlocal.fasta OK +400: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mlocal.moverlap.fasta OK +400: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mglobal.fasta OK +400: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mlocal.fasta OK +400: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.moverlap.fasta OK +400: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mlcs.fasta OK +400: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mglobal.mlocal.fasta OK +400: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mlocal.moverlap.fasta OK +400: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mglobal.fasta OK +400: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mlocal.fasta OK +400: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.moverlap.fasta OK +400: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mlcs.fasta OK +400: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mglobal.mlocal.fasta OK +400: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mlocal.moverlap.fasta OK +400: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.g-20.fasta OK +400: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.e-5.fasta OK +400: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.ms10.fasta OK +400: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.mm-8.fasta OK +400: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.g-20.fasta OK +400: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.e-5.fasta OK +400: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.ms10.fasta OK +400: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.mm-8.fasta OK +400: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.g-20.fasta OK +400: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.e-5.fasta OK +400: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.ms10.fasta OK +400: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.mm-8.fasta OK +400: 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/tmpc8z4jsni/1aab.maVTML200.fasta OK +400: 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/tmpc8z4jsni/1ad2.maVTML200.fasta OK +400: 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/tmpc8z4jsni/2trx.maVTML200.fasta OK +400: 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/tmpc8z4jsni/1aab.u.fasta OK +400: 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/tmpc8z4jsni/1ad2.u.fasta OK +400: 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/tmpc8z4jsni/2trx.u.fasta OK +400: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.bnj.fasta OK +400: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.bmin.fasta OK +400: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.bmax.fasta OK +400: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.bavg.fasta OK +400: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpc8z4jsni/1aab.bwavg.fasta OK +400: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.bnj.fasta OK +400: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.bmin.fasta OK +400: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.bmax.fasta OK +400: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.bavg.fasta OK +400: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpc8z4jsni/1ad2.bwavg.fasta OK +400: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.bnj.fasta OK +400: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmpc8z4jsni +400: OK +400: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.bmax.fasta OK +400: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.bavg.fasta OK +400: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpc8z4jsni/2trx.bwavg.fasta OK +400: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fasta OK +400: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fasta OK +400: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fasta OK +400: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2.fa -o /tmp/tmpc8z4jsni/adeno2.fasta OK +400: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3.fa -o /tmp/tmpc8z4jsni/adeno3.fasta OK +400: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4.fa -o /tmp/tmpc8z4jsni/adeno4.fasta OK +400: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2-rna.fa -o /tmp/tmpc8z4jsni/adeno2-rna.fasta OK +400: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3-rna.fa -o /tmp/tmpc8z4jsni/adeno3-rna.fasta OK +400: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4-rna.fa -o /tmp/tmpc8z4jsni/adeno4-rna.fasta OK +400: ============================== +400: total tests: 66 +400: failed tests: 0 +400: successful tests: 66 +400: ============================== +392/407 Test #400: app_test_seqan_tcoffee ............................................................ Passed 5.39 sec +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +395: Executing test for razers3 +395: =========================== +395: +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-ng-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-r-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-f-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i90-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i91-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i92-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i93-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i94-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i95-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i96-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i97-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i98-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i99-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-i100-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of0-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of1-tc0.fa OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of2-tc0.eland OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of3-tc0.gff OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of4-tc0.sam OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-of5-tc0.afg OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-so0-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads36_1-so1-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-ng-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-r-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-f-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i90-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i91-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i92-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i93-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i94-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i95-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i96-tc0.razers OK +394: Executing test for razers3 +394: =========================== 394: -394: insegt -ro /tmp/tmpd0aq9fu2/default_readOutput.gff -ao /tmp/tmpd0aq9fu2/default_annoOutput.gff -to /tmp/tmpd0aq9fu2/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/tmpd0aq9fu2/threshold-count2_readOutput.gff -ao /tmp/tmpd0aq9fu2/threshold-count2_annoOutput.gff -to /tmp/tmpd0aq9fu2/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/tmpd0aq9fu2/ntuple3_readOutput.gff -ao /tmp/tmpd0aq9fu2/ntuple3_annoOutput.gff -to /tmp/tmpd0aq9fu2/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/tmpd0aq9fu2/max-tuple_readOutput.gff -ao /tmp/tmpd0aq9fu2/max-tuple_annoOutput.gff -to /tmp/tmpd0aq9fu2/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/tmpd0aq9fu2/exact-ntuple_readOutput.gff -ao /tmp/tmpd0aq9fu2/exact-ntuple_annoOutput.gff -to /tmp/tmpd0aq9fu2/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: 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/tmpcy59acmq/se-adeno-reads36_1-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-ng-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-r-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-f-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i90-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i91-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i92-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i93-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i94-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i95-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i96-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i97-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i98-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i99-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-i100-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of0-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of1-tc1.fa OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of2-tc1.eland OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of3-tc1.gff OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of4-tc1.sam OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-of5-tc1.afg OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-so0-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads36_1-so1-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-ng-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-r-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-f-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i90-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i91-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i92-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i93-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i94-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i95-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i96-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i97-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i98-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i99-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-i100-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of0-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of1-tc1.fa OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of2-tc1.eland OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of3-tc1.gff OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of4-tc1.sam OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-of5-tc1.afg OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-so0-tc1.razers OK +394: 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/tmpcy59acmq/se-adeno-reads100_1-so1-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-r-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-f-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i90-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i91-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i92-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i93-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i94-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i95-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i96-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i97-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i98-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i99-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-i100-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of0-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of1-tc1.fa OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i97-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i98-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i99-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-i100-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of0-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of1-tc0.fa OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of2-tc0.eland OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of3-tc0.gff OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of4-tc0.sam OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-of5-tc0.afg OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-so0-tc0.razers OK +395: 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/tmpxe6z5q7x/se-adeno-reads100_1-so1-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-r-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-f-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i90-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i91-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i92-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i93-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i94-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i95-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i96-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i97-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i98-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i99-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-i100-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of0-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of1-tc0.fa OK +393: Executing test for razers +393: ========================= +393: +393: 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/tmpd_b58k38/se-adeno-reads36_1.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-r.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-f.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i90.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i91.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i92.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i93.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i94.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i95.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i96.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i97.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i98.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i99.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-i100.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-of0.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-of1.fa OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-of2.eland OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-of3.gff OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-so0.razers OK +393: 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/tmpd_b58k38/se-adeno-reads36_1-id-so1.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-r.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-f.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i90.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i91.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i92.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i93.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i94.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i95.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i96.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i97.razers OK +404: Executing test for splazers +404: ========================= +404: +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_default.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml16_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml17_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml18_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml19_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep0_es0.out OK +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +72: test_journaled_string_tree_find_horspool OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of2-tc1.eland OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of3-tc1.gff OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of4-tc1.sam OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-of5-tc1.afg OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-so0-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads36_2-so1-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-r-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-f-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i90-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i91-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i92-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i93-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i94-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i95-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i96-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i97-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i98-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i99-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-i100-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of0-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of1-tc1.fa OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of2-tc1.eland OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of3-tc1.gff OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of4-tc1.sam OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmpcy59acmq +394: OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-so0-tc1.razers OK +394: 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/tmpcy59acmq/pe-adeno-reads100_2-so1-tc1.razers OK 394: ============================== -394: total tests: 5 +394: total tests: 92 394: failed tests: 0 -394: successful tests: 5 +394: successful tests: 92 394: ============================== -404: DELETING TEMP DIR /tmp/tmpk0xp5v8t -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/tmpk0xp5v8t/test_sam2matrix.tsv OK +393/407 Test #394: app_test_razers3 .................................................................. Passed 15.00 sec +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of2-tc0.eland OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of3-tc0.gff OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of4-tc0.sam OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-of5-tc0.afg OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-so0-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads36_2-so1-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-r-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-f-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i90-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i91-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i92-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i93-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i94-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i95-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i96-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i97-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i98-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i99-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-i100-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of0-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of1-tc0.fa OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of2-tc0.eland OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of3-tc0.gff OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of4-tc0.sam OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmpxe6z5q7x +395: OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-so0-tc0.razers OK +395: 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/tmpxe6z5q7x/pe-adeno-reads100_2-so1-tc0.razers OK +395: ============================== +395: total tests: 92 +395: failed tests: 0 +395: successful tests: 92 +395: ============================== +394/407 Test #395: app_test_razers3_sequential ....................................................... Passed 15.59 sec +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml21_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml22_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml23_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml24_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep0_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep0_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep0_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep1_es0.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml25_ep1_es2.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-r_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-f_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i90_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpnzzmn9ar +404: OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i93_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i94_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i95_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i96_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i97_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i98_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-i99_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-of3_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-of4_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-so0_ep1_es1.out OK +404: 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/tmpnzzmn9ar/se-adeno-reads100_1_mml20-so1_ep1_es1.out OK +404: 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/tmpnzzmn9ar/anchored_adeno_example100.out -ll 300 -le 90 OK 404: ============================== -404: total tests: 1 +404: total tests: 78 404: failed tests: 0 -404: successful tests: 1 +404: successful tests: 78 404: ============================== -383/414 Test #404: app_test_sam2matrix ............................................................... Passed 0.20 sec -384/414 Test #394: app_test_insegt ................................................................... Passed 0.33 sec -115: VStreamTest_Compression type parameter seqan::Tag 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: VStreamTest_Compression type parameter seqan::Tag OK -84: test_parallel_thread_pool_destruct OK -84: test_parallel_enumerable_thread_local_construct OK -403: DELETING TEMP DIR /tmp/tmp2rcsto59 -403: Executing test for sak -403: ====================== +395/407 Test #404: app_test_splazers ................................................................. Passed 22.77 sec +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +72: test_journaled_string_tree_find_shiftand OK +62: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +62: ************************************** +62: Total Tests: 12 +62: Skipped: 0 +62: Errors: 0 +62: ************************************** +396/407 Test #62: test_test_index_bifm .............................................................. Passed 44.08 sec +399: DELETING TEMP DIR /tmp/tmpuf4ksxp6 +399: Executing test for searchjoin +399: =========================== +399: +399: /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/tmpuf4ksxp6/join_geo_0_5.out OK +399: /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/tmpuf4ksxp6/join_geo_1_5.out OK +399: /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/tmpuf4ksxp6/join_geo_3_5.out OK +399: /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/tmpuf4ksxp6/join_dna_0_10.out OK +399: /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/tmpuf4ksxp6/join_dna_8_10.out OK +399: /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/tmpuf4ksxp6/join_dna_16_10.out OK +399: /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/tmpuf4ksxp6/search_geo_5.out OK +399: /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/tmpuf4ksxp6/search_dna_10.out OK +399: ============================== +399: total tests: 8 +399: failed tests: 0 +399: successful tests: 8 +399: ============================== +397/407 Test #399: app_test_searchjoin ............................................................... Passed 36.87 sec +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i98.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i99.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-i100.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-of0.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-of1.fa OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-of2.eland OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-of3.gff OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-so0.razers OK +393: 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/tmpd_b58k38/se-adeno-reads100_1-id-so1.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-r.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-f.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i90.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i91.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i92.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i93.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i94.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i95.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i96.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i97.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i98.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i99.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-i100.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-of0.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-of1.fa OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-of2.eland OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-of3.gff OK +72: test_journaled_string_tree_find_shiftor OK +21: test_bam_io_bam_file_bam_file_seek OK +21: test_bam_io_sam_file_issue_489 OK +21: test_bam_io_bam_index_save OK +21: test_bam_io_bam_index_open OK +21: ************************************** +21: Total Tests: 107 +21: Skipped: 0 +21: Errors: 0 +21: ************************************** +398/407 Test #21: test_test_bam_io .................................................................. Passed 63.26 sec +403: DELETING TEMP DIR /tmp/tmpz8eg6vk9 +403: Executing test for snp_store +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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/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/tmp2rcsto59/adeno.s1rc.fa -403: OK +403: 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/tmpz8eg6vk9/snps_default.vcf -id /tmp/tmpz8eg6vk9/indels_default.gff OK +403: 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/tmpz8eg6vk9/snps_realign.vcf -id /tmp/tmpz8eg6vk9/indels_realign.gff OK +403: 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/tmpz8eg6vk9/snps_realign_m1mp1oa.vcf -id /tmp/tmpz8eg6vk9/indels_realign_m1mp1oa.gff OK +403: 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/tmpz8eg6vk9/snps_realign_m0mp1oa.vcf -id /tmp/tmpz8eg6vk9/indels_realign_m0mp1oa.gff OK +403: 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/tmpz8eg6vk9/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmpz8eg6vk9/indels_realign_m0mp1oa_it1ipt01.gff OK 403: ============================== -403: total tests: 8 +403: total tests: 5 403: failed tests: 0 -403: successful tests: 8 +403: successful tests: 5 403: ============================== -414: DELETING TEMP DIR /tmp/tmpg2jq0ilp -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 -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/tmpg2jq0ilp/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/tmpg2jq0ilp/adeno-reads_1.t1.sam --threads 1 OK -414: ============================== -414: total tests: 2 -414: failed tests: 0 -414: successful tests: 2 -414: ============================== -66: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -385/414 Test #403: app_test_sak ...................................................................... Passed 1.65 sec -66: ************************************** -66: Total Tests: 28 -66: Skipped: 0 -66: Errors: 0 -66: ************************************** -386/414 Test #414: app_test_yara ..................................................................... Passed 1.56 sec -393: DELETING TEMP DIR /tmp/tmp_5g6d3vx -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 -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/tmp_5g6d3vx/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/tmp_5g6d3vx/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/tmp_5g6d3vx/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/tmp_5g6d3vx/reads_simulated_mates1_rc.fa -o /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/reads_simulated_mates1.fa -o /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/st2_l100.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/st1_l30.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/st1_l30_m.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/st1_l30_ith5.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/st1_l30_gth3.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/pairedEnd_st1_l30.gff -vcf /tmp/tmp_5g6d3vx/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/tmp_5g6d3vx/reference2_st1_l30.gff -vcf /tmp/tmp_5g6d3vx/reference2_st1_l30.vcf -st 1 -l 30 OK -393: ============================== -393: total tests: 12 -393: failed tests: 0 -393: successful tests: 12 -393: ============================== -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -387/414 Test #66: test_test_index_base .............................................................. Passed 6.27 sec -115: InputStreamTest_Open type parameter std::basic_fstream > 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 -388/414 Test #393: app_test_gustaf ................................................................... Passed 1.87 sec -115: InputStreamTest_Open type parameter std::basic_ifstream > OK -84: test_parallel_enumerable_thread_local_combine_binary OK -84: ************************************** -84: Total Tests: 29 -84: Skipped: 0 -84: Errors: 0 -84: ************************************** -389/414 Test #84: test_test_parallel ................................................................ Passed 6.06 sec -413: DELETING TEMP DIR /tmp/tmp4ts_erqn -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/tmp4ts_erqn/example1.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp4ts_erqn/example2.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/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/tmp4ts_erqn/example3.wavg.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp4ts_erqn/example1.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp4ts_erqn/example1.newick OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp4ts_erqn/example2.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp4ts_erqn/example2.newick OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp4ts_erqn/example3.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp4ts_erqn/example3.newick OK -413: ============================== -413: total tests: 23 -413: failed tests: 0 -413: successful tests: 23 -413: ============================== -390/414 Test #413: app_test_tree_recon ............................................................... Passed 1.77 sec -396: DELETING TEMP DIR /tmp/tmphpcm1hc8 -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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/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/tmphpcm1hc8/out_mrna_2l.roi OK -396: ============================== -396: total tests: 26 -396: failed tests: 0 -396: successful tests: 26 -396: ============================== -405: DELETING TEMP DIR /tmp/tmp0ghppikp -405: Executing test for samcat +399/407 Test #403: app_test_snp_store ................................................................ Passed 55.30 sec +383: DELETING TEMP DIR /tmp/tmpj1pgcgbz +383: Executing test for bs_tools +383: ========================= +383: +383: bisar -e3 4 -e4 5 -o /tmp/tmpj1pgcgbz/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 +383: OK +383: 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/tmpj1pgcgbz/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 +383: OK +383: 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/tmpj1pgcgbz/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 +383: OK +383: 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/tmpj1pgcgbz/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 +383: OK +383: 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/tmpj1pgcgbz/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 +383: OK +383: bisar -e3 4 -e4 5 -o /tmp/tmpj1pgcgbz/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 +383: OK +383: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpj1pgcgbz/snps_se_0.vcf -b /tmp/tmpj1pgcgbz/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 +383: OK +383: casbar -nec -mc 2 -msc 3 -mpc 0.5 -hes 0.005 -o /tmp/tmpj1pgcgbz/snps_se_1.vcf -b /tmp/tmpj1pgcgbz/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 +383: OK +383: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpj1pgcgbz/snps_pe_0.vcf -b /tmp/tmpj1pgcgbz/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 +383: OK +383: ============================== +383: total tests: 9 +383: failed tests: 0 +383: successful tests: 9 +383: ============================== +400/407 Test #383: app_test_bs_tools ................................................................. Passed 58.99 sec +388: DELETING TEMP DIR /tmp/tmpzdgfj6yf +388: Executing test for micro_razers +388: =============================== +388: +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_default.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl14.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl14.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl14_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl15.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl15.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl15_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl16.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl16.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl16_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl17.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl17.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl17_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl18.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl18.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl18_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl19.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl19.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl19_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl20.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl20.sam OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl20_se.razers OK +388: 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/tmpzdgfj6yf/se-adeno-reads36_1_sl18_m20_pa.razers OK +388: ============================== +388: total tests: 23 +388: failed tests: 0 +388: successful tests: 23 +388: ============================== +401/407 Test #388: app_test_micro_razers ............................................................. Passed 59.81 sec +72: test_journaled_string_tree_find_myers OK +72: ************************************** +72: Total Tests: 4 +72: Skipped: 0 +72: Errors: 0 +72: ************************************** +402/407 Test #72: test_journaled_string_tree_find ................................................... Passed 80.49 sec +405: Executing test for stellar 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/tmp0ghppikp/ex1_merged.sam +405: stellar -e 0.1 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.025 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.075 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 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/tmp0ghppikp/ex1_merged.bam +405: stellar -e 0.0001 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.05 -l 20 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.05 -l 150 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 +405: OK +405: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpsqvnm8pk/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 405: OK 405: ============================== -405: total tests: 2 +405: total tests: 8 405: failed tests: 0 -405: successful tests: 2 +405: successful tests: 8 405: ============================== -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. -391/414 Test #405: app_test_samcat ................................................................... Passed 1.97 sec -392/414 Test #396: app_test_ngs_roi .................................................................. Passed 2.10 sec -393/414 Test #362: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 2.47 sec -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -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/tmp2k7ja3_u/1aab.fa OK -397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp2k7ja3_u/1ad2.fa OK -397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/2trx.cffff.fa OK -115: InputStreamTest_Get type parameter std::basic_fstream > OK -408: DELETING TEMP DIR /tmp/tmprawcvlko -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/tmprawcvlko/alns1.overlap_consensus.fa -oa /tmp/tmprawcvlko/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/tmprawcvlko/alns1.nop.fa -oa /tmp/tmprawcvlko/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/tmprawcvlko/alns1.overlap_consensus.sam -oc /tmp/tmprawcvlko/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/tmprawcvlko/alns1.pos_consensus.sam -oc /tmp/tmprawcvlko/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/tmprawcvlko/alns1.contig_consensus.sam -oc /tmp/tmprawcvlko/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/tmprawcvlko/alns1.realign.sam -oc /tmp/tmprawcvlko/alns1.realign.fa OK -408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmprawcvlko/alns1.nop.sam -oc /tmp/tmprawcvlko/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/tmprawcvlko/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/tmprawcvlko/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/tmprawcvlko/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/tmprawcvlko/alns1.realign.txt OK -408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmprawcvlko/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/tmprawcvlko/seqs2.align_consensus.sam -oc /tmp/tmprawcvlko/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/tmprawcvlko/seqs2.align_consensus.txt OK -408: ============================== -408: total tests: 14 -408: failed tests: 0 -408: successful tests: 14 -408: ============================== -397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp2k7ja3_u/2trx.ctttt.faDELETING TEMP DIR /tmp/tmp2k7ja3_u -394/414 Test #408: app_test_seqcons2 ................................................................. Passed 2.53 sec -397: OK -397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/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/tmp2k7ja3_u/adeno3-rna.fa OK -397: ============================== -397: total tests: 75 -397: failed tests: 0 -397: successful tests: 75 -397: ============================== -395/414 Test #397: app_test_pair_align ............................................................... Passed 2.71 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 -115: ************************************** -115: Total Tests: 213 -115: Skipped: 0 -115: Errors: 0 -115: ************************************** -396/414 Test #115: test_test_stream .................................................................. Passed 6.80 sec -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > 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 -409: DELETING TEMP DIR /tmp/tmp_5sv1evd -409: Executing test for sgip -409: ========================= -409: -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B00 -v 2 -i OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A01 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B01 -v 2 -i OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.B01 -v 2 -i OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/r01/iso_r01_m200.A00 -v 2 OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/latin-4 -v 2 OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/lattice-4 -v 2 OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/paley-5 -v 2 OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/sts-7 -v 2 OK -409: sgip -o /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/../example/srg/triang-5 -v 2 OK -409: ============================== -409: total tests: 9 -409: failed tests: 0 -409: successful tests: 9 -409: ============================== -397/414 Test #409: app_test_sgip ..................................................................... Passed 3.86 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: ************************************** -398/414 Test #67: test_test_index_fm ................................................................ Passed 8.88 sec -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > 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/tmpxy8nr4gb/1aab.fasta OK -407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpxy8nr4gb/1ad2.fasta OK -407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/2trx.bnj.fasta 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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmpxy8nr4gb/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmpxy8nr4gb -407: OK -407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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/tmpxy8nr4gb/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 5.80 sec -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > 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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/se-adeno-reads100_1_mml21_ep0_es0.out 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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/pe-adeno-reads36_2-of1-tc0.fa 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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/pe-adeno-reads36_2-of1-tc1.fa 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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/se-adeno-reads100_1-id-i97.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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/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/tmp9hui0tqk/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmp9hui0tqk -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/tmp9hui0tqk/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/tmp9hui0tqk/pe-adeno-reads100_2-so1-tc0.razers OK -402: ============================== -402: total tests: 92 -402: failed tests: 0 -402: successful tests: 92 -402: ============================== -400/414 Test #402: app_test_razers3_sequential ....................................................... Passed 11.10 sec -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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/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/tmp36tr1__w/pe-adeno-reads100_2-of4-tc1.sam OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, 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-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp36tr1__w/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmp36tr1__w -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/tmp36tr1__w/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/tmp36tr1__w/pe-adeno-reads100_2-so1-tc1.razers OK -401: ============================== -401: total tests: 92 -401: failed tests: 0 -401: successful tests: 92 -401: ============================== -401/414 Test #401: app_test_razers3 .................................................................. Passed 11.90 sec -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 -27: test_bam_io_bam_index_open OK -27: ************************************** -27: Total Tests: 107 -27: Skipped: 0 -27: Errors: 0 -27: ************************************** -402/414 Test #27: test_test_bam_io .................................................................. Passed 17.10 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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > 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/tmpt39ruixb/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpt39ruixb -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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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/tmpt39ruixb/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 15.27 sec -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 22.91 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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/pe-adeno-reads36_2-id-of3.gff OK -406: DELETING TEMP DIR /tmp/tmpdtfhuqnt -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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/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/tmpdtfhuqnt/search_dna_10.out OK -406: ============================== -406: total tests: 8 -406: failed tests: 0 -406: successful tests: 8 -406: ============================== -405/414 Test #406: app_test_searchjoin ............................................................... Passed 24.32 sec -78: test_journaled_string_tree_find_horspool OK -410: DELETING TEMP DIR /tmp/tmpwr4fhb0e -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/tmpwr4fhb0e/snps_default.vcf -id /tmp/tmpwr4fhb0e/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/tmpwr4fhb0e/snps_realign.vcf -id /tmp/tmpwr4fhb0e/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/tmpwr4fhb0e/snps_realign_m1mp1oa.vcf -id /tmp/tmpwr4fhb0e/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/tmpwr4fhb0e/snps_realign_m0mp1oa.vcf -id /tmp/tmpwr4fhb0e/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/tmpwr4fhb0e/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmpwr4fhb0e/indels_realign_m0mp1oa_it1ipt01.gff OK -410: ============================== -410: total tests: 5 -410: failed tests: 0 -410: successful tests: 5 -410: ============================== -406/414 Test #410: app_test_snp_store ................................................................ Passed 26.87 sec -395: DELETING TEMP DIR /tmp/tmptrefpw4g -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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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/tmptrefpw4g/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 27.57 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/tmp0a3w_98x/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmp0a3w_98x -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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/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/tmp0a3w_98x/pe-adeno-reads100_2-id-so1.razers OK -400: ============================== -400: total tests: 84 -400: failed tests: 0 -400: successful tests: 84 -400: ============================== -408/414 Test #400: app_test_razers ................................................................... Passed 48.44 sec -390: DELETING TEMP DIR /tmp/tmpfjm4yeiq -390: Executing test for bs_tools -390: ========================= -390: -390: bisar -e3 4 -e4 5 -o /tmp/tmpfjm4yeiq/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/tmpfjm4yeiq/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/tmpfjm4yeiq/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/tmpfjm4yeiq/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/tmpfjm4yeiq/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/tmpfjm4yeiq/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/tmpfjm4yeiq/snps_se_0.vcf -b /tmp/tmpfjm4yeiq/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/tmpfjm4yeiq/snps_se_1.vcf -b /tmp/tmpfjm4yeiq/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/tmpfjm4yeiq/snps_pe_0.vcf -b /tmp/tmpfjm4yeiq/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: ============================== -409/414 Test #390: app_test_bs_tools ................................................................. Passed 48.69 sec -78: test_journaled_string_tree_find_shiftand 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/tmpupr7gep0/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/tmpupr7gep0/5e-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/tmpupr7gep0/25e-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/tmpupr7gep0/75e-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/tmpupr7gep0/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/tmpupr7gep0/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/tmpupr7gep0/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/tmpupr7gep0/5e-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: ============================== -410/414 Test #412: app_test_stellar .................................................................. Passed 53.51 sec -78: test_journaled_string_tree_find_shiftor 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 103.40 sec -399: DELETING TEMP DIR /tmp/tmpessbag_x -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/tmpessbag_x/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/tmpessbag_x/gold-adeno-edit-08.by_qname.sam OK -399: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmpessbag_x/gold-adeno-hamming-08.gsi --reference /tmp/tmpessbag_x/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/tmpessbag_x/gold-adeno-edit-08.gsi --reference /tmp/tmpessbag_x/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/tmpessbag_x/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/tmpessbag_x/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/tmpessbag_x/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/tmpessbag_x/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 108.90 sec -392: DELETING TEMP DIR /tmp/tmpktkk8go1 -392: Executing test for fiona -392: ======================== +403/407 Test #405: app_test_stellar .................................................................. Passed 72.90 sec +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmpd_b58k38 +393: OK +393: 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/tmpd_b58k38/pe-adeno-reads36_2-id-so1.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-r.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-f.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i90.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i91.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i92.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i93.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i94.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i95.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i96.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i97.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i98.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i99.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-i100.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-of0.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-of1.fa OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-of2.eland OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-of3.gff OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-so0.razers OK +393: 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/tmpd_b58k38/pe-adeno-reads100_2-id-so1.razers OK +393: ============================== +393: total tests: 84 +393: failed tests: 0 +393: successful tests: 84 +393: ============================== +404/407 Test #393: app_test_razers ................................................................... Passed 75.23 sec +392: DELETING TEMP DIR /tmp/tmpttyxhdjs +392: Executing test for rabema +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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/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/tmpktkk8go1/reads.454.corrected.i2.fa -392: OK +392: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.sam -o /tmp/tmpttyxhdjs/gold-adeno-hamming-08.by_qname.sam OK +392: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.sam -o /tmp/tmpttyxhdjs/gold-adeno-edit-08.by_qname.sam OK +392: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmpttyxhdjs/gold-adeno-hamming-08.gsi --reference /tmp/tmpttyxhdjs/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.by_coordinate.sam OK +392: rabema_build_gold_standard --distance-metric edit -e 8 -o /tmp/tmpttyxhdjs/gold-adeno-edit-08.gsi --reference /tmp/tmpttyxhdjs/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.by_coordinate.sam OK +392: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpttyxhdjs/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 +392: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpttyxhdjs/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 +392: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpttyxhdjs/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 +392: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpttyxhdjs/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 392: ============================== -392: total tests: 4 +392: total tests: 8 392: failed tests: 0 -392: successful tests: 4 +392: successful tests: 8 392: ============================== -413/414 Test #392: app_test_fiona .................................................................... Passed 121.63 sec -391: DELETING TEMP DIR /tmp/tmpmi05hcah -391: Executing test for dfi -391: ====================== -391: -391: dfi /tmp/tmpmi05hcah/datasets/bbe.fa /tmp/tmpmi05hcah/datasets/kjv.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/bbe.fa /tmp/tmpmi05hcah/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/CompWindows.fa /tmp/tmpmi05hcah/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmpmi05hcah/datasets/fasta1.fa /tmp/tmpmi05hcah/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 137.71 sec +405/407 Test #392: app_test_rabema ................................................................... Passed 80.89 sec +384: DELETING TEMP DIR /tmp/tmp6fcf87ev +384: Executing test for dfi +384: ====================== +384: +384: dfi /tmp/tmp6fcf87ev/datasets/bbe.fa /tmp/tmp6fcf87ev/datasets/kjv.fa --support 0.002 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/bbe.fa /tmp/tmp6fcf87ev/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/CompWindows.fa /tmp/tmp6fcf87ev/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +384: dfi /tmp/tmp6fcf87ev/datasets/fasta1.fa /tmp/tmp6fcf87ev/datasets/fasta2.fa --support 1 --growth 2 OK +384: ============================== +384: total tests: 15 +384: failed tests: 0 +384: successful tests: 15 +384: ============================== +406/407 Test #384: app_test_dfi ...................................................................... Passed 151.94 sec +385: DELETING TEMP DIR /tmp/tmp5a9eqy5v +385: Executing test for fiona +385: ======================== +385: +385: /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/tmp5a9eqy5v/reads.illumina.corrected.i1.fa +385: /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/tmp5a9eqy5v/reads.illumina.corrected.i1.fa +385: OK +385: /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/tmp5a9eqy5v/reads.illumina.corrected.i2.fa +385: /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/tmp5a9eqy5v/reads.illumina.corrected.i2.fa +385: OK +385: /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/tmp5a9eqy5v/reads.454.corrected.i1.fa +385: /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/tmp5a9eqy5v/reads.454.corrected.i1.fa +385: OK +385: /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/tmp5a9eqy5v/reads.454.corrected.i2.fa +385: /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/tmp5a9eqy5v/reads.454.corrected.i2.fa +385: OK +385: ============================== +385: total tests: 4 +385: failed tests: 0 +385: successful tests: 4 +385: ============================== +407/407 Test #385: app_test_fiona .................................................................... Passed 172.92 sec -100% tests passed, 0 tests failed out of 414 +100% tests passed, 0 tests failed out of 407 -Total Test time (real) = 142.66 sec +Total Test time (real) = 181.23 sec make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' - rm -fr -- /tmp/dh-xdg-rundir-wwwMfnSG + rm -fr -- /tmp/dh-xdg-rundir-t3tOpFNP create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/seqan-apps.substvars debian/libseqan2-dev.substvars @@ -314248,7 +313452,7 @@ 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 -j42 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 -j20 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 @@ -314997,7 +314201,7 @@ 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 -j42 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 -j20 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 @@ -315148,9 +314352,9 @@ gmake[5]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /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' -[ 0%] Generating sak.1 [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=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 @@ -315333,72 +314537,50 @@ dh_installman --arch install -m0755 -d debian/seqan-apps/usr/share/man/man1/ install -p -m0644 debian/tmp/usr/share/man/man1/sak.1 debian/seqan-apps/usr/share/man/man1/sak.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/alf.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/gustaf.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_materializer.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_methylation.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/micro_razers.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/pair_align.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/razers.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/razers3.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/sak.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/snp_store.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 - 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/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_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/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 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/alf.1 debian/seqan-apps/usr/share/man/man1/gustaf.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.1 debian/seqan-apps/usr/share/man/man1/mason_materializer.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/mason_methylation.1 debian/seqan-apps/usr/share/man/man1/micro_razers.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/pair_align.1 debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/razers.1 debian/seqan-apps/usr/share/man/man1/razers3.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/sak.1 debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 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/snp_store.1 debian/seqan-apps/usr/share/man/man1/splazers.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.1 debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + mv debian/seqan-apps/usr/share/man/man1/insegt.1.dh-new debian/seqan-apps/usr/share/man/man1/insegt.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/insegt.1 debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.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/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/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/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/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/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 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/alf.1 debian/seqan-apps/usr/share/man/man1/gustaf.1 + mv debian/seqan-apps/usr/share/man/man1/mason_methylation.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_methylation.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/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/insegt.1.dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/insegt.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_methylation.1 debian/seqan-apps/usr/share/man/man1/micro_razers.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/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/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/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/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/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 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/pair_align.1 debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 + mv debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.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_evaluate.1 debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 + mv debian/seqan-apps/usr/share/man/man1/razers.1.dh-new debian/seqan-apps/usr/share/man/man1/razers.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 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers.1 debian/seqan-apps/usr/share/man/man1/razers3.1 + mv debian/seqan-apps/usr/share/man/man1/mason_genome.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.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_genome.1 debian/seqan-apps/usr/share/man/man1/mason_materializer.1 + mv debian/seqan-apps/usr/share/man/man1/stellar.1.dh-new debian/seqan-apps/usr/share/man/man1/stellar.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/stellar.1 debian/seqan-apps/usr/share/man/man1/tree_recon.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/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/splazers.1.dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/snp_store.1 debian/seqan-apps/usr/share/man/man1/splazers.1 + mv debian/seqan-apps/usr/share/man/man1/sak.1.dh-new debian/seqan-apps/usr/share/man/man1/sak.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/sak.1 debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + mv debian/seqan-apps/usr/share/man/man1/yara_indexer.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.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_indexer.1 debian/seqan-apps/usr/share/man/man1/yara_mapper.1 make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_installman -Nseqan-apps dh_perl @@ -315406,50 +314588,50 @@ 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/razers + ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers + 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/splazers ln -s ../lib/seqan/bin/splazers debian/seqan-apps/usr/bin/splazers 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/mason_materializer - ln -s ../lib/seqan/bin/mason_materializer debian/seqan-apps/usr/bin/mason_materializer - 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/razers - ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers 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/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_methylation - ln -s ../lib/seqan/bin/mason_methylation debian/seqan-apps/usr/bin/mason_methylation + 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/snp_store + ln -s ../lib/seqan/bin/snp_store debian/seqan-apps/usr/bin/snp_store + 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/sak ln -s ../lib/seqan/bin/sak debian/seqan-apps/usr/bin/sak + 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/stellar ln -s ../lib/seqan/bin/stellar debian/seqan-apps/usr/bin/stellar - 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/yara_indexer - ln -s ../lib/seqan/bin/yara_indexer debian/seqan-apps/usr/bin/yara_indexer 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/insegt + ln -s ../lib/seqan/bin/insegt debian/seqan-apps/usr/bin/insegt + 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_methylation + ln -s ../lib/seqan/bin/mason_methylation debian/seqan-apps/usr/bin/mason_methylation + 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/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/yara_mapper ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper - 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/pair_align - ln -s ../lib/seqan/bin/pair_align debian/seqan-apps/usr/bin/pair_align + 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/micro_razers ln -s ../lib/seqan/bin/micro_razers debian/seqan-apps/usr/bin/micro_razers - 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/alf - ln -s ../lib/seqan/bin/alf debian/seqan-apps/usr/bin/alf - 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_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/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/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 @@ -315503,16 +314685,16 @@ 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.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 + Normalizing debian/seqan-apps/usr/share/doc/seqan-apps/ngs_roi/R/ngsroi_0.1.tar.gz using File::StripNondeterminism::handlers::gzip dh_compress cd debian/seqan-apps cd debian/libseqan2-dev chmod a-x usr/share/doc/libseqan2-dev/changelog usr/share/doc/libseqan2-dev/changelog.Debian gzip -9nf usr/share/doc/libseqan2-dev/changelog usr/share/doc/libseqan2-dev/changelog.Debian chmod a-x usr/share/doc/seqan-apps/alf/README usr/share/doc/seqan-apps/changelog usr/share/doc/seqan-apps/changelog.Debian usr/share/doc/seqan-apps/dfi/README usr/share/doc/seqan-apps/fiona/example/reads.fa usr/share/doc/seqan-apps/gustaf/README usr/share/doc/seqan-apps/gustaf/example/adeno.fa usr/share/doc/seqan-apps/gustaf/example/adeno_modified.fa usr/share/doc/seqan-apps/insegt/README usr/share/doc/seqan-apps/mason2/README.mason_methylation usr/share/doc/seqan-apps/mason2/README.mason_simulator usr/share/doc/seqan-apps/mason2/README.mason_variator usr/share/doc/seqan-apps/mason2/example/adeno_virus.fa usr/share/doc/seqan-apps/micro_razers/README usr/share/doc/seqan-apps/ngs_roi/README usr/share/doc/seqan-apps/ngs_roi/example/dmel.bed usr/share/doc/seqan-apps/ngs_roi/example/dmel.gtf usr/share/doc/seqan-apps/ngs_roi/example/example.bam usr/share/doc/seqan-apps/rabema/README usr/share/doc/seqan-apps/razers/README usr/share/doc/seqan-apps/razers3/README usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A01 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B01 usr/share/doc/seqan-apps/snp_store/README usr/share/doc/seqan-apps/snp_store/example/exampleGenome.fa usr/share/doc/seqan-apps/splazers/README usr/share/doc/seqan-apps/stellar/README usr/share/doc/seqan-apps/stellar/example/NC_001474.fasta usr/share/doc/seqan-apps/stellar/example/NC_001477.fasta usr/share/doc/seqan-apps/yara/README.rst usr/share/man/man1/alf.1 usr/share/man/man1/gustaf.1 usr/share/man/man1/insegt.1 usr/share/man/man1/mason_frag_sequencing.1 usr/share/man/man1/mason_genome.1 usr/share/man/man1/mason_materializer.1 usr/share/man/man1/mason_methylation.1 usr/share/man/man1/micro_razers.1 usr/share/man/man1/pair_align.1 usr/share/man/man1/rabema_build_gold_standard.1 usr/share/man/man1/rabema_evaluate.1 usr/share/man/man1/rabema_prepare_sam.1 usr/share/man/man1/razers.1 usr/share/man/man1/razers3.1 usr/share/man/man1/sak.1 usr/share/man/man1/seqan_tcoffee.1 usr/share/man/man1/snp_store.1 usr/share/man/man1/splazers.1 usr/share/man/man1/stellar.1 usr/share/man/man1/tree_recon.1 usr/share/man/man1/yara_indexer.1 usr/share/man/man1/yara_mapper.1 - gzip -9nf usr/share/doc/seqan-apps/alf/README usr/share/doc/seqan-apps/changelog usr/share/doc/seqan-apps/changelog.Debian usr/share/doc/seqan-apps/dfi/README usr/share/doc/seqan-apps/fiona/example/reads.fa usr/share/doc/seqan-apps/gustaf/README usr/share/doc/seqan-apps/gustaf/example/adeno.fa usr/share/doc/seqan-apps/gustaf/example/adeno_modified.fa usr/share/doc/seqan-apps/insegt/README usr/share/doc/seqan-apps/mason2/README.mason_methylation usr/share/doc/seqan-apps/mason2/README.mason_simulator usr/share/doc/seqan-apps/mason2/README.mason_variator usr/share/doc/seqan-apps/mason2/example/adeno_virus.fa usr/share/doc/seqan-apps/micro_razers/README usr/share/doc/seqan-apps/ngs_roi/README usr/share/doc/seqan-apps/ngs_roi/example/dmel.bed usr/share/doc/seqan-apps/ngs_roi/example/dmel.gtf usr/share/doc/seqan-apps/ngs_roi/example/example.bam usr/share/doc/seqan-apps/rabema/README usr/share/doc/seqan-apps/razers/README usr/share/doc/seqan-apps/razers3/README usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A01 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B01 usr/share/doc/seqan-apps/snp_store/README usr/share/doc/seqan-apps/snp_store/example/exampleGenome.fa usr/share/doc/seqan-apps/splazers/README usr/share/doc/seqan-apps/stellar/README usr/share/doc/seqan-apps/stellar/example/NC_001474.fasta usr/share/doc/seqan-apps/stellar/example/NC_001477.fasta usr/share/doc/seqan-apps/yara/README.rst usr/share/man/man1/alf.1 usr/share/man/man1/gustaf.1 usr/share/man/man1/insegt.1 usr/share/man/man1/mason_frag_sequencing.1 usr/share/man/man1/mason_genome.1 usr/share/man/man1/mason_materializer.1 usr/share/man/man1/mason_methylation.1 usr/share/man/man1/micro_razers.1 usr/share/man/man1/pair_align.1 usr/share/man/man1/rabema_build_gold_standard.1 usr/share/man/man1/rabema_evaluate.1 usr/share/man/man1/rabema_prepare_sam.1 usr/share/man/man1/razers.1 usr/share/man/man1/razers3.1 usr/share/man/man1/sak.1 usr/share/man/man1/seqan_tcoffee.1 usr/share/man/man1/snp_store.1 usr/share/man/man1/splazers.1 usr/share/man/man1/stellar.1 usr/share/man/man1/tree_recon.1 usr/share/man/man1/yara_indexer.1 usr/share/man/man1/yara_mapper.1 cd '/build/reproducible-path/seqan2-2.4.0+dfsg' + gzip -9nf usr/share/doc/seqan-apps/alf/README usr/share/doc/seqan-apps/changelog usr/share/doc/seqan-apps/changelog.Debian usr/share/doc/seqan-apps/dfi/README usr/share/doc/seqan-apps/fiona/example/reads.fa usr/share/doc/seqan-apps/gustaf/README usr/share/doc/seqan-apps/gustaf/example/adeno.fa usr/share/doc/seqan-apps/gustaf/example/adeno_modified.fa usr/share/doc/seqan-apps/insegt/README usr/share/doc/seqan-apps/mason2/README.mason_methylation usr/share/doc/seqan-apps/mason2/README.mason_simulator usr/share/doc/seqan-apps/mason2/README.mason_variator usr/share/doc/seqan-apps/mason2/example/adeno_virus.fa usr/share/doc/seqan-apps/micro_razers/README usr/share/doc/seqan-apps/ngs_roi/README usr/share/doc/seqan-apps/ngs_roi/example/dmel.bed usr/share/doc/seqan-apps/ngs_roi/example/dmel.gtf usr/share/doc/seqan-apps/ngs_roi/example/example.bam usr/share/doc/seqan-apps/rabema/README usr/share/doc/seqan-apps/razers/README usr/share/doc/seqan-apps/razers3/README usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A01 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B01 usr/share/doc/seqan-apps/snp_store/README usr/share/doc/seqan-apps/snp_store/example/exampleGenome.fa usr/share/doc/seqan-apps/splazers/README usr/share/doc/seqan-apps/stellar/README usr/share/doc/seqan-apps/stellar/example/NC_001474.fasta usr/share/doc/seqan-apps/stellar/example/NC_001477.fasta usr/share/doc/seqan-apps/yara/README.rst usr/share/man/man1/alf.1 usr/share/man/man1/gustaf.1 usr/share/man/man1/insegt.1 usr/share/man/man1/mason_frag_sequencing.1 usr/share/man/man1/mason_genome.1 usr/share/man/man1/mason_materializer.1 usr/share/man/man1/mason_methylation.1 usr/share/man/man1/micro_razers.1 usr/share/man/man1/pair_align.1 usr/share/man/man1/rabema_build_gold_standard.1 usr/share/man/man1/rabema_evaluate.1 usr/share/man/man1/rabema_prepare_sam.1 usr/share/man/man1/razers.1 usr/share/man/man1/razers3.1 usr/share/man/man1/sak.1 usr/share/man/man1/seqan_tcoffee.1 usr/share/man/man1/snp_store.1 usr/share/man/man1/splazers.1 usr/share/man/man1/stellar.1 usr/share/man/man1/tree_recon.1 usr/share/man/man1/yara_indexer.1 usr/share/man/man1/yara_mapper.1 cd '/build/reproducible-path/seqan2-2.4.0+dfsg' rm -f debian/seqan-apps.debhelper.log debian/rules override_dh_fixperms-arch @@ -315542,96 +314724,51 @@ 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/49 - 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/49/c2f02acedf72c69995192081e1a74668385308.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49/c2f02acedf72c69995192081e1a74668385308.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/49/c2f02acedf72c69995192081e1a74668385308.debug debian/seqan-apps/usr/lib/seqan/bin/insegt - 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/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.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/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.debug debian/seqan-apps/usr/lib/seqan/bin/fiona + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/db + 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/db/51b79f1c154ce39682d57782ea6ef91a191409.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/db/51b79f1c154ce39682d57782ea6ef91a191409.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/db/51b79f1c154ce39682d57782ea6ef91a191409.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d 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/8d/e56481430dce7643cd74d1fe7972ed21e84611.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/e56481430dce7643cd74d1fe7972ed21e84611.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/8d/e56481430dce7643cd74d1fe7972ed21e84611.debug debian/seqan-apps/usr/lib/seqan/bin/bam2roi - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22 - 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/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/31 + 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/31/1076025db0d835e2d3acd0b2e6df9a7580393e.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/31/1076025db0d835e2d3acd0b2e6df9a7580393e.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/31/1076025db0d835e2d3acd0b2e6df9a7580393e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome 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/mason_frag_sequencing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a/6cd4affce64fe44ab018562fdf716515e34f4f.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a/6cd4affce64fe44ab018562fdf716515e34f4f.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/3a/6cd4affce64fe44ab018562fdf716515e34f4f.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/8e - 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/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.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/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.debug debian/seqan-apps/usr/lib/seqan/bin/bisar - 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/e5/1f24193dc00831fcf56bcec4e689eb276216de.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/1f24193dc00831fcf56bcec4e689eb276216de.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/e5/1f24193dc00831fcf56bcec4e689eb276216de.debug debian/seqan-apps/usr/lib/seqan/bin/samcat - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/09 - 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/09/bf33a072001a8f54648c8648b2f92c948ba016.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/09/bf33a072001a8f54648c8648b2f92c948ba016.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/09/bf33a072001a8f54648c8648b2f92c948ba016.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a2 - 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/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.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/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/65 - 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/65/e777ef7c56da24adf258e21e51535aba4b6859.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/65/e777ef7c56da24adf258e21e51535aba4b6859.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/65/e777ef7c56da24adf258e21e51535aba4b6859.debug debian/seqan-apps/usr/lib/seqan/bin/s4_join - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0d - 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/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.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/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.debug debian/seqan-apps/usr/lib/seqan/bin/alf - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a9 - 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/a9/c59a744745d229e21de7ddb7afb763a3194e45.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a9/c59a744745d229e21de7ddb7afb763a3194e45.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/a9/c59a744745d229e21de7ddb7afb763a3194e45.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49 - 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/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.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/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.debug debian/seqan-apps/usr/lib/seqan/bin/mason_variator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe + 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/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.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/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.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/c7 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c7/38c725bf2ab8a021d0e35ed54062ad8d73cff6.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c7/38c725bf2ab8a021d0e35ed54062ad8d73cff6.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/c7/38c725bf2ab8a021d0e35ed54062ad8d73cff6.debug debian/seqan-apps/usr/lib/seqan/bin/micro_razers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/44 - 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/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.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/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.debug debian/seqan-apps/usr/lib/seqan/bin/sgip - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5a - 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/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.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/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.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/14 - 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/14/3006b8ddb676600bc36e31da60e116f4a486fa.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/14/3006b8ddb676600bc36e31da60e116f4a486fa.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/14/3006b8ddb676600bc36e31da60e116f4a486fa.debug debian/seqan-apps/usr/lib/seqan/bin/pair_align - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4f - 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/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.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/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee + 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/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.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/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/80 + 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/80/8772e3e65e203ad095fa6a6f25485d17d516f7.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/80/8772e3e65e203ad095fa6a6f25485d17d516f7.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/80/8772e3e65e203ad095fa6a6f25485d17d516f7.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/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/e5/1f24193dc00831fcf56bcec4e689eb276216de.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/1f24193dc00831fcf56bcec4e689eb276216de.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/e5/1f24193dc00831fcf56bcec4e689eb276216de.debug debian/seqan-apps/usr/lib/seqan/bin/samcat install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f8 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/f8/4ce5557b83fa0c495865695fe71c645a27327f.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f8/4ce5557b83fa0c495865695fe71c645a27327f.debug @@ -315642,131 +314779,176 @@ chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a0/d2ef458989a5e8a0b15d2a44d655c1f341b5bb.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/a0/d2ef458989a5e8a0b15d2a44d655c1f341b5bb.debug debian/seqan-apps/usr/lib/seqan/bin/casbar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4d - 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/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.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/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.debug debian/seqan-apps/usr/lib/seqan/bin/dfi - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8c - 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/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.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/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.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/71 + 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/71/f50960a3affb465df1deada153ef3048d0c16f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/71/f50960a3affb465df1deada153ef3048d0c16f.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/71/f50960a3affb465df1deada153ef3048d0c16f.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/8e + 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/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.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/8e/d3dc94f7f543074f6876fd703ad0eddab219d3.debug debian/seqan-apps/usr/lib/seqan/bin/bisar install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/03 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/03/6a390f0042eed17d1934641ff164ef1a04ce2d.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/03/6a390f0042eed17d1934641ff164ef1a04ce2d.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/03/6a390f0042eed17d1934641ff164ef1a04ce2d.debug debian/seqan-apps/usr/lib/seqan/bin/yara_indexer - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/31 - 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/31/1076025db0d835e2d3acd0b2e6df9a7580393e.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/31/1076025db0d835e2d3acd0b2e6df9a7580393e.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/31/1076025db0d835e2d3acd0b2e6df9a7580393e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b3 + 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/b3/10c024f957df21e28aebc236e18463e9c7a0a9.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b3/10c024f957df21e28aebc236e18463e9c7a0a9.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/b3/10c024f957df21e28aebc236e18463e9c7a0a9.debug debian/seqan-apps/usr/lib/seqan/bin/mason_methylation + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c9 + 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/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.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/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/44 + 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/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.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/44/5d1e3ef8d582fd5ed23d1b40247505ebcdb37f.debug debian/seqan-apps/usr/lib/seqan/bin/sgip + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f5 + 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/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.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/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.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/49 + 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/49/c2f02acedf72c69995192081e1a74668385308.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49/c2f02acedf72c69995192081e1a74668385308.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/49/c2f02acedf72c69995192081e1a74668385308.debug debian/seqan-apps/usr/lib/seqan/bin/insegt + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8c + 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/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.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/8c/cc65089d5c476db1727a1b32a35c5bb7649d8a.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/ec 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/ec/bcde485192397ded4ef958e8e42e541593b9c5.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ec/bcde485192397ded4ef958e8e42e541593b9c5.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/ec/bcde485192397ded4ef958e8e42e541593b9c5.debug debian/seqan-apps/usr/lib/seqan/bin/stellar + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22 + 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/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/22/5ce6c34f62fb5aae970d1f6d8bc853a0141100.debug debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0d + 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/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.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/0d/8a1aa0f7128b9e7ca31a4e4c0029b983955b6f.debug debian/seqan-apps/usr/lib/seqan/bin/alf install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/88 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/88/2fca061730e8604e24bad1dbcf88df338176a8.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/88/2fca061730e8604e24bad1dbcf88df338176a8.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/88/2fca061730e8604e24bad1dbcf88df338176a8.debug debian/seqan-apps/usr/lib/seqan/bin/sak + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4f + 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/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.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/4f/617dc6e93f1c10e85deeecaf86e9d25ae4d4e6.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4d + 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/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.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/4d/a82a9b7a6de21f92d8e2d6ba0873939e3ce067.debug debian/seqan-apps/usr/lib/seqan/bin/dfi install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/70 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/70/a2fb819b4de50587cce407a3d5b971db99240a.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/70/a2fb819b4de50587cce407a3d5b971db99240a.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/70/a2fb819b4de50587cce407a3d5b971db99240a.debug debian/seqan-apps/usr/lib/seqan/bin/four2three - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/bc - 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/bc/613cdaa8693c32f3279693464bd61a910fc103.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/bc/613cdaa8693c32f3279693464bd61a910fc103.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/bc/613cdaa8693c32f3279693464bd61a910fc103.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe - 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/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.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/fe/f3d0a534e500a4d59ff5f1f525112c68cc8fb5.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/46 - 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/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.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/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b3 - 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/b3/10c024f957df21e28aebc236e18463e9c7a0a9.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b3/10c024f957df21e28aebc236e18463e9c7a0a9.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/b3/10c024f957df21e28aebc236e18463e9c7a0a9.debug debian/seqan-apps/usr/lib/seqan/bin/mason_methylation - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/71 - 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/71/f50960a3affb465df1deada153ef3048d0c16f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/71/f50960a3affb465df1deada153ef3048d0c16f.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/71/f50960a3affb465df1deada153ef3048d0c16f.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/f5 - 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/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.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/f5/86f0929dbd751ee288e6d8d72f015824bc5cd5.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/b4 - 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/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.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/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/80 - 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/80/8772e3e65e203ad095fa6a6f25485d17d516f7.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/80/8772e3e65e203ad095fa6a6f25485d17d516f7.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/80/8772e3e65e203ad095fa6a6f25485d17d516f7.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/a2 + 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/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.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/a2/2301d539ed55e165c430ca49ae69c6617ab9bf.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a9 + 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/a9/c59a744745d229e21de7ddb7afb763a3194e45.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a9/c59a744745d229e21de7ddb7afb763a3194e45.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/a9/c59a744745d229e21de7ddb7afb763a3194e45.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4 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/f4/a91ec7f6032d391f723d448022c0a60dbeae4b.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4/a91ec7f6032d391f723d448022c0a60dbeae4b.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/f4/a91ec7f6032d391f723d448022c0a60dbeae4b.debug debian/seqan-apps/usr/lib/seqan/bin/sam2matrix + 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/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.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/99/70bb93c16fe01020253332f9f1fcf3958a0b7f.debug debian/seqan-apps/usr/lib/seqan/bin/fiona + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/46 + 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/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.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/46/61a00dfac89fa22f7fdbd84d98e5a48591610a.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/23 + 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/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.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/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.debug debian/seqan-apps/usr/lib/seqan/bin/s4_search + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/65 + 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/65/e777ef7c56da24adf258e21e51535aba4b6859.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/65/e777ef7c56da24adf258e21e51535aba4b6859.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/65/e777ef7c56da24adf258e21e51535aba4b6859.debug debian/seqan-apps/usr/lib/seqan/bin/s4_join + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5a + 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/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.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/5a/a233f4c9afdc541e6ef0c113f88ed256a996c0.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/54 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/54/e071bb85580acdc97ae77a7b3fb0b98764393c.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/54/e071bb85580acdc97ae77a7b3fb0b98764393c.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/54/e071bb85580acdc97ae77a7b3fb0b98764393c.debug debian/seqan-apps/usr/lib/seqan/bin/param_chooser - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/15 - 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/15/d177c099d39b11517528f4b04d5e64209a2bad.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/15/d177c099d39b11517528f4b04d5e64209a2bad.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/15/d177c099d39b11517528f4b04d5e64209a2bad.debug debian/seqan-apps/usr/lib/seqan/bin/razers + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/bc + 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/bc/613cdaa8693c32f3279693464bd61a910fc103.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/bc/613cdaa8693c32f3279693464bd61a910fc103.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/bc/613cdaa8693c32f3279693464bd61a910fc103.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b4 + 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/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.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/b4/0c6a8ee064cd5c9ad279232f2ae00f87f322c0.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49 + 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/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.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/49/9dc2ea2334957c45aae56c8c3160ba11e24db2.debug debian/seqan-apps/usr/lib/seqan/bin/mason_variator install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52 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/52/930cea571faa1d28f085aed185391970814468.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/930cea571faa1d28f085aed185391970814468.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/52/930cea571faa1d28f085aed185391970814468.debug debian/seqan-apps/usr/lib/seqan/bin/rep_sep - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c9 - 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/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.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/c9/c84c8b12ea49f11ec4e70ef9a55dc2bf2a6393.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf - 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/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.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/43/3c6999eb9dd51cfbc15b3d1aa2394b828694ac.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer 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/tree_recon debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/3545434f30be8d8c3b0ff64750f29a7ec839d3.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/3545434f30be8d8c3b0ff64750f29a7ec839d3.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/e5/3545434f30be8d8c3b0ff64750f29a7ec839d3.debug debian/seqan-apps/usr/lib/seqan/bin/tree_recon - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/23 - 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/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.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/23/2b8fdccd1e9aea034e95f1850cffdd79405a9d.debug debian/seqan-apps/usr/lib/seqan/bin/s4_search install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3d 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/3d/d28bd6b574090ecb9dfd4310b939986d4a9012.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3d/d28bd6b574090ecb9dfd4310b939986d4a9012.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/3d/d28bd6b574090ecb9dfd4310b939986d4a9012.debug debian/seqan-apps/usr/lib/seqan/bin/splazers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/db - 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/db/51b79f1c154ce39682d57782ea6ef91a191409.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/db/51b79f1c154ce39682d57782ea6ef91a191409.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/db/51b79f1c154ce39682d57782ea6ef91a191409.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/09 + 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/09/bf33a072001a8f54648c8648b2f92c948ba016.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/09/bf33a072001a8f54648c8648b2f92c948ba016.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/09/bf33a072001a8f54648c8648b2f92c948ba016.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/14 + 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/14/3006b8ddb676600bc36e31da60e116f4a486fa.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/14/3006b8ddb676600bc36e31da60e116f4a486fa.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/14/3006b8ddb676600bc36e31da60e116f4a486fa.debug debian/seqan-apps/usr/lib/seqan/bin/pair_align + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/15 + 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/15/d177c099d39b11517528f4b04d5e64209a2bad.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/15/d177c099d39b11517528f4b04d5e64209a2bad.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/15/d177c099d39b11517528f4b04d5e64209a2bad.debug debian/seqan-apps/usr/lib/seqan/bin/razers 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 @@ -315778,7 +314960,7 @@ 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/insegt debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/sgip debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails 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/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/razers debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + dpkg-shlibdeps -Tdebian/seqan-apps.substvars debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/sgip debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/seqan-apps/usr/lib/seqan/bin/insegt debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/razers dh_installdeb install -m0755 -d debian/seqan-apps/DEBIAN install -m0755 -d debian/libseqan2-dev/DEBIAN @@ -315810,9 +314992,9 @@ dpkg-deb --root-owner-group --build debian/seqan-apps .. dpkg-deb --root-owner-group --build debian/.debhelper/seqan-apps/dbgsym-root .. dpkg-deb --root-owner-group --build debian/libseqan2-dev .. -dpkg-deb: building package 'seqan-apps-dbgsym' in '../seqan-apps-dbgsym_2.4.0+dfsg-16_amd64.deb'. dpkg-deb: building package 'seqan-apps' in '../seqan-apps_2.4.0+dfsg-16_amd64.deb'. dpkg-deb: building package 'libseqan2-dev' in '../libseqan2-dev_2.4.0+dfsg-16_all.deb'. +dpkg-deb: building package 'seqan-apps-dbgsym' in '../seqan-apps-dbgsym_2.4.0+dfsg-16_amd64.deb'. dpkg-genbuildinfo --build=binary -O../seqan2_2.4.0+dfsg-16_amd64.buildinfo dpkg-genchanges --build=binary -O../seqan2_2.4.0+dfsg-16_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -315820,12 +315002,14 @@ 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/3748625/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3748625/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/1888586 and its subdirectories -I: Current time: Mon Apr 13 18:38:38 -12 2026 -I: pbuilder-time-stamp: 1776148718 +I: removing directory /srv/workspace/pbuilder/3748625 and its subdirectories +I: Current time: Wed Mar 12 18:51:20 +14 2025 +I: pbuilder-time-stamp: 1741755080