Diff of the two buildlogs: -- --- b1/build.log 2024-10-21 10:15:01.421913549 +0000 +++ b2/build.log 2024-10-21 10:18:33.274390710 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Oct 20 22:12:17 -12 2024 -I: pbuilder-time-stamp: 1729505537 +I: Current time: Mon Nov 24 06:38:04 +14 2025 +I: pbuilder-time-stamp: 1763915884 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,51 +30,83 @@ dpkg-source: info: applying libdata_libpbihdf.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/783102/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1157350/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-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 23 16:38 /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/1157350/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1157350/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' + 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=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='c2a9714f16114f35a2d64f34bb106ac2' - 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='783102' - PS1='# ' - PS2='> ' + INVOCATION_ID=4e1e84a0b68b406cbd577b8ba670a99f + 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=1157350 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.JwPcSYBq/pbuilderrc_VB2u --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JwPcSYBq/b1 --logfile b1/build.log pbdagcon_0.3+git20180411.c14c422+dfsg-9.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.JwPcSYBq/pbuilderrc_VR4i --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.JwPcSYBq/b2 --logfile b2/build.log pbdagcon_0.3+git20180411.c14c422+dfsg-9.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.1.0-26-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/783102/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1157350/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -255,7 +287,7 @@ Get: 122 http://deb.debian.org/debian trixie/main amd64 libpbihdf-dev amd64 5.3.5+dfsg-6+b3 [47.2 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libpbseq-dev amd64 5.3.5+dfsg-6+b3 [5032 B] Get: 124 http://deb.debian.org/debian trixie/main amd64 libtclap-dev amd64 1.2.5-1+b1 [3360 kB] -Fetched 69.2 MB in 5s (12.9 MB/s) +Fetched 69.2 MB in 1s (59.5 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 ... 19799 files and directories currently installed.) @@ -675,8 +707,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Mon Oct 21 10:14:01 UTC 2024. -Universal Time is now: Mon Oct 21 10:14:01 UTC 2024. +Local time is now: Sun Nov 23 16:40:15 UTC 2025. +Universal Time is now: Sun Nov 23 16:40:15 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -781,7 +813,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../pbdagcon_0.3+git20180411.c14c422+dfsg-9_source.changes +I: user script /srv/workspace/pbuilder/1157350/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1157350/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pbdagcon_0.3+git20180411.c14c422+dfsg-9_source.changes dpkg-buildpackage: info: source package pbdagcon dpkg-buildpackage: info: source version 0.3+git20180411.c14c422+dfsg-9 dpkg-buildpackage: info: source distribution unstable @@ -905,8 +941,22 @@ g++ -o test-alignment gtest-all.o gtest_main.o AlnGraphBoost.o Alignment.o SimpleAligner.o AlignmentTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o test-simple_aligner gtest-all.o gtest_main.o AlnGraphBoost.o Alignment.o SimpleAligner.o SimpleAlignerTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread g++ -o test-target_hit gtest-all.o gtest_main.o DB.o QV.o align.o Alignment.o DazAlnProvider.o TargetHitTest.o -Wl,-z,relro -L /usr/lib/x86_64-linux-gnu/hdf5/serial -lrt -lblasr -lpbbam -lhdf5_cpp -lhdf5 -lhts -lz -lpthread +LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-simple_aligner --gtest_output=xml:xml/test-simple_aligner.xml LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-target_hit --gtest_output=xml:xml/test-target_hit.xml Running main() from /usr/src/googletest/googletest/src/gtest_main.cc +[==========] Running 1 test from 1 test suite. +[----------] Global test environment set-up. +[----------] 1 test from SimpleAligner +[ RUN ] SimpleAligner.align +[ OK ] SimpleAligner.align (0 ms) +[----------] 1 test from SimpleAligner (0 ms total) + +[----------] Global test environment tear-down +LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alngraph --gtest_output=xml:xml/test-alngraph.xml +[==========] 1 test from 1 test suite ran. (0 ms total) +[ PASSED ] 1 test. +LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alignment --gtest_output=xml:xml/test-alignment.xml +Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 3 tests from 1 test suite. [----------] Global test environment set-up. [----------] 3 tests from TargetHitTest @@ -921,9 +971,19 @@ [----------] Global test environment tear-down [==========] 3 tests from 1 test suite ran. (0 ms total) [ PASSED ] 3 tests. -LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alignment --gtest_output=xml:xml/test-alignment.xml -LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-simple_aligner --gtest_output=xml:xml/test-simple_aligner.xml -LD_LIBRARY_PATH=::::/usr/lib/x86_64-linux-gnu/hdf5/serial::: PBDAGCON_TEST_DATA_DIR=./ ./test-alngraph --gtest_output=xml:xml/test-alngraph.xml +Running main() from /usr/src/googletest/googletest/src/gtest_main.cc +[==========] Running 2 tests from 1 test suite. +[----------] Global test environment set-up. +[----------] 2 tests from AlnGraphBoostTest +[ RUN ] AlnGraphBoostTest.RawConsensus +[ OK ] AlnGraphBoostTest.RawConsensus (0 ms) +[ RUN ] AlnGraphBoostTest.DanglingNodes +[ OK ] AlnGraphBoostTest.DanglingNodes (0 ms) +[----------] 2 tests from AlnGraphBoostTest (0 ms total) + +[----------] Global test environment tear-down +[==========] 2 tests from 1 test suite ran. (0 ms total) +[ PASSED ] 2 tests. Running main() from /usr/src/googletest/googletest/src/gtest_main.cc [==========] Running 4 tests from 1 test suite. [----------] Global test environment set-up. @@ -941,30 +1001,6 @@ [----------] Global test environment tear-down [==========] 4 tests from 1 test suite ran. (0 ms total) [ PASSED ] 4 tests. -Running main() from /usr/src/googletest/googletest/src/gtest_main.cc -[==========] Running 1 test from 1 test suite. -[----------] Global test environment set-up. -[----------] 1 test from SimpleAligner -[ RUN ] SimpleAligner.align -[ OK ] SimpleAligner.align (0 ms) -[----------] 1 test from SimpleAligner (0 ms total) - -[----------] Global test environment tear-down -[==========] 1 test from 1 test suite ran. (0 ms total) -[ PASSED ] 1 test. -Running main() from /usr/src/googletest/googletest/src/gtest_main.cc -[==========] Running 2 tests from 1 test suite. -[----------] Global test environment set-up. -[----------] 2 tests from AlnGraphBoostTest -[ RUN ] AlnGraphBoostTest.RawConsensus -[ OK ] AlnGraphBoostTest.RawConsensus (0 ms) -[ RUN ] AlnGraphBoostTest.DanglingNodes -[ OK ] AlnGraphBoostTest.DanglingNodes (0 ms) -[----------] 2 tests from AlnGraphBoostTest (0 ms total) - -[----------] Global test environment tear-down -[==========] 2 tests from 1 test suite ran. (0 ms total) -[ PASSED ] 2 tests. make[2]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg/test/cpp' make[1]: Leaving directory '/build/reproducible-path/pbdagcon-0.3+git20180411.c14c422+dfsg' create-stamp debian/debhelper-build-stamp @@ -989,8 +1025,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'pbdagcon' in '../pbdagcon_0.3+git20180411.c14c422+dfsg-9_amd64.deb'. dpkg-deb: building package 'pbdagcon-dbgsym' in '../pbdagcon-dbgsym_0.3+git20180411.c14c422+dfsg-9_amd64.deb'. +dpkg-deb: building package 'pbdagcon' in '../pbdagcon_0.3+git20180411.c14c422+dfsg-9_amd64.deb'. dpkg-genbuildinfo --build=binary -O../pbdagcon_0.3+git20180411.c14c422+dfsg-9_amd64.buildinfo dpkg-genchanges --build=binary -O../pbdagcon_0.3+git20180411.c14c422+dfsg-9_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -998,12 +1034,14 @@ 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/1157350/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1157350/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/783102 and its subdirectories -I: Current time: Sun Oct 20 22:15:00 -12 2024 -I: pbuilder-time-stamp: 1729505700 +I: removing directory /srv/workspace/pbuilder/1157350 and its subdirectories +I: Current time: Mon Nov 24 06:41:32 +14 2025 +I: pbuilder-time-stamp: 1763916092