Diff of the two buildlogs: -- --- b1/build.log 2024-11-17 08:53:50.273405743 +0000 +++ b2/build.log 2024-11-17 08:57:25.575727273 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Dec 20 03:04:43 -12 2025 -I: pbuilder-time-stamp: 1766243083 +I: Current time: Sun Nov 17 22:53:52 +14 2024 +I: pbuilder-time-stamp: 1731833632 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying fix-gcc13-ftbfs.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1597022/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/148697/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-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 Nov 17 08:54 /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/148697/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/148697/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='unstable' - 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]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(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=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='91b2c2648ac24e67bf02ffa29e3bb390' - 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='1597022' - PS1='# ' - PS2='> ' + INVOCATION_ID=7e09eac3c61d4ede88657d13bc8daf89 + 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=148697 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.u12COV1M/pbuilderrc_0xwX --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.u12COV1M/b1 --logfile b1/build.log megahit_1.2.9-5.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.u12COV1M/pbuilderrc_3xNc --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.u12COV1M/b2 --logfile b2/build.log megahit_1.2.9-5.dsc' + SUDO_GID=110 + SUDO_UID=105 + 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 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1597022/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/148697/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -205,7 +237,7 @@ Get: 84 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Get: 86 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 51.9 MB in 1s (44.6 MB/s) +Fetched 51.9 MB in 3s (20.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19966 files and directories currently installed.) @@ -502,8 +534,8 @@ Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Dec 20 15:06:32 UTC 2025. -Universal Time is now: Sat Dec 20 15:06:32 UTC 2025. +Local time is now: Sun Nov 17 08:54:30 UTC 2024. +Universal Time is now: Sun Nov 17 08:54:30 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... @@ -578,7 +610,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/megahit-1.2.9/ && 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 > ../megahit_1.2.9-5_source.changes +I: user script /srv/workspace/pbuilder/148697/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/148697/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/megahit-1.2.9/ && 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 > ../megahit_1.2.9-5_source.changes dpkg-buildpackage: info: source package megahit dpkg-buildpackage: info: source version 1.2.9-5 dpkg-buildpackage: info: source distribution unstable @@ -619,8 +655,8 @@ -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Build type: None: -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' --- Configuring done (5.0s) --- Generating done (0.1s) +-- Configuring done (1.9s) +-- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -635,7 +671,7 @@ -- Build files have been written to: /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu dh_auto_build - 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/megahit-1.2.9/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/megahit-1.2.9 -B/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -643,126 +679,101 @@ make[2]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' make -f CMakeFiles/megahit_core.dir/build.make CMakeFiles/megahit_core.dir/depend make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/depend -make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' make -f CMakeFiles/megahit_core_no_hw_accel.dir/build.make CMakeFiles/megahit_core_no_hw_accel.dir/depend -cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core.dir/DependInfo.cmake "--color=" make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/depend -cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_popcnt.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_no_hw_accel.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_toolkit.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' +cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_popcnt.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' +cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_no_hw_accel.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/build +make -f CMakeFiles/megahit_core.dir/build.make CMakeFiles/megahit_core.dir/build +make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' +make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/build make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -make -f CMakeFiles/megahit_core.dir/build.make CMakeFiles/megahit_core.dir/build +make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/build +/usr/bin/cmake -E create_symlink megahit_core_no_hw_accel megahit_toolkit make -f CMakeFiles/megahit_core_no_hw_accel.dir/build.make CMakeFiles/megahit_core_no_hw_accel.dir/build make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/build make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -/usr/bin/cmake -E create_symlink megahit_core_no_hw_accel megahit_toolkit -[ 1%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -[ 1%] Building CXX object CMakeFiles/megahit_core.dir/src/main.cpp.o -[ 2%] Building CXX object CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -[ 4%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -[ 5%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/main.cpp -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/main.cpp.o -MF CMakeFiles/megahit_core.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/main.cpp -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/main.cpp +[ 0%] Building CXX 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/build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : 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/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: + from /usr/include/c++/14/deque:67, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:14: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -814,18 +825,21 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 40%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp -[ 41%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/unitig_graph.cpp -In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp:9: +[ 29%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/contig_output.cpp +[ 30%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp +[ 31%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp +In file included from /build/reproducible-path/megahit-1.2.9/src/idba/hash_table.h:22, + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:20, + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/deque:67, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:14: + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:13: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -877,15 +891,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/megahit-1.2.9/src/idba/hash_table.h:22, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:20, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp:9: +In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, - from /usr/include/c++/14/deque:67, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:13: + from /usr/include/c++/14/vector:68, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -937,30 +951,34 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 42%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops 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CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp -[ 43%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -c 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CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 33%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp +[ 34%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_writer.cpp +[ 35%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 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-D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp +[ 38%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/low_depth_remover.cpp +[ 39%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/fastx_reader.cpp +[ 40%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o +[ 41%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/sequence_lib.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp:9: + from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp:10: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/refwrap.h:39, - from /usr/include/c++/14/deque:67, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:14: +In file included from /usr/include/c++/14/string:49, + from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.h:25, + from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1012,17 +1030,60 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 49%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o +[ 42%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/contig_output.cpp +[ 43%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/sdbg_pruning.cpp +[ 44%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/tip_remover.cpp +[ 45%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/base_engine.cpp +[ 45%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time 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-D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/low_depth_remover.cpp +[ 46%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/kmsort_selector.cpp +[ 47%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp +[ 48%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/unitig_graph.cpp +[ 49%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp +[ 50%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 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-D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/tools/contigs_to_fastg.cpp +[ 53%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/weak_link_remover.cpp +[ 54%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/tools/filter_by_len.cpp +[ 55%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/tools/read_stat.cpp +[ 56%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/tip_remover.cpp +[ 57%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp +[ 58%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o +[ 59%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/unitig_graph.cpp +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/assembly/weak_link_remover.cpp +[ 60%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp +[ 61%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp +[ 62%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o /usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, - from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : 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/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: + from /usr/include/c++/14/deque:67, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:14: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1074,8 +1135,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 50%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/hash_mapper.cpp +[ 63%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -1135,8 +1196,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 51%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp +[ 64%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/hash_table.h:22, from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:20, from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp:9: @@ -1197,8 +1258,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 52%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp +[ 65%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_meta.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: @@ -1259,18 +1320,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 53%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp -[ 54%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -In file included from /build/reproducible-path/megahit-1.2.9/src/idba/hash_table.h:22, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:20, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp:9: +[ 66%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp +[ 67%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp +In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, - from /usr/include/c++/14/deque:67, - from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:13: + from /usr/include/c++/14/vector:68, + from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1322,43 +1384,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp -[ 55%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -[ 56%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -[ 57%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_meta.cpp -[ 58%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp -[ 59%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops 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CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/sequence_lib.cpp -[ 61%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_meta.cpp -[ 62%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/hash_mapper.cpp -[ 63%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp -[ 64%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp -[ 65%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/kmer_counter.cpp -[ 66%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -[ 67%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/kmsort_selector.cpp -In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp:10: +In file included from /build/reproducible-path/megahit-1.2.9/src/idba/hash_table.h:22, + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:20, + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.cpp:9: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.h:25, - from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp:1: +In file included from /usr/include/c++/14/bits/refwrap.h:39, + from /usr/include/c++/14/deque:67, + from /build/reproducible-path/megahit-1.2.9/src/idba/hash_graph.h:13: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1410,22 +1444,26 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 68%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp -[ 69%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/hash_mapper.cpp -[ 70%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_writer.cpp -[ 71%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp -[ 72%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -[ 73%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o +[ 68%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_writer.cpp +[ 69%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/hash_mapper.cpp +[ 69%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp +[ 70%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/fastx_reader.cpp +[ 71%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/idba/sequence.cpp +[ 72%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o /usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp -[ 74%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp -[ 75%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/sequence_lib.cpp +[ 73%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/sequence_lib.cpp +[ 74%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/base_engine.cpp +[ 74%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 75%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp In file included from /build/reproducible-path/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp:10: /build/reproducible-path/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -1485,28 +1523,26 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 76%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -MF 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-/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp -[ 79%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp -[ 80%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 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CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp -[ 81%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sequence/io/sequence_lib.cpp -[ 82%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/base_engine.cpp -[ 83%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mbmi2 -DUSE_BMI2 -mpopcnt -MD -MT CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp -[ 84%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/tools/contigs_to_fastg.cpp +[ 76%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sorting/kmsort_selector.cpp +[ 78%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/sdbg/sdbg_writer.cpp +[ 79%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -mpopcnt -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -c 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CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/hash_mapper.cpp +[ 82%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/reproducible-path/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -c /build/reproducible-path/megahit-1.2.9/src/localasm/local_assemble.cpp +[ 83%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o +/usr/bin/c++ -I/build/reproducible-path/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/reproducible-path/megahit-1.2.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -o megahit_core -lz -make[3]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' -[100%] Built target megahit_core +[100%] Built target megahit_core_no_hw_accel make -f CMakeFiles/megahit.dir/build.make CMakeFiles/megahit.dir/depend make[3]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' cd /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9 /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu /build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit.dir/DependInfo.cmake "--color=" @@ -1623,7 +1659,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/megahit/ - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/megahit-1.2.9/debian/megahit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/megahit-1.2.9/debian/megahit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/megahit-1.2.9 -B/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1639,15 +1675,15 @@ -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/bin/megahit -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/bin/megahit_toolkit -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data +-- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/loop.fa +-- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r4.fa -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r2.il.fa.bz2 +-- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/generate_random_fasta.py -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r3_1.fa --- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/loop.fa -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r3_2.fa --- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/generate_random_fasta.py -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/ref.fa -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/empty.fa -- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r1.il.fa.gz --- Installing: /build/reproducible-path/megahit-1.2.9/debian/megahit/usr/share/megahit/test_data/r4.fa make[1]: Leaving directory '/build/reproducible-path/megahit-1.2.9/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/megahit-1.2.9' @@ -1672,8 +1708,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'megahit' in '../megahit_1.2.9-5_amd64.deb'. dpkg-deb: building package 'megahit-dbgsym' in '../megahit-dbgsym_1.2.9-5_amd64.deb'. +dpkg-deb: building package 'megahit' in '../megahit_1.2.9-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../megahit_1.2.9-5_amd64.buildinfo dpkg-genchanges --build=binary -O../megahit_1.2.9-5_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1681,12 +1717,14 @@ 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/148697/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/148697/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/1597022 and its subdirectories -I: Current time: Sat Dec 20 03:16:47 -12 2025 -I: pbuilder-time-stamp: 1766243807 +I: removing directory /srv/workspace/pbuilder/148697 and its subdirectories +I: Current time: Sun Nov 17 22:57:25 +14 2024 +I: pbuilder-time-stamp: 1731833845