Diff of the two buildlogs: -- --- b1/build.log 2024-05-15 04:50:24.109188645 +0000 +++ b2/build.log 2024-05-15 04:51:07.323349774 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue May 14 16:48:50 -12 2024 -I: pbuilder-time-stamp: 1715748530 +I: Current time: Wed Jun 18 01:13:27 +14 2025 +I: pbuilder-time-stamp: 1750158807 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -28,52 +28,84 @@ dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1267562/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1303758/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-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 Jun 17 11:13 /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/1303758/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1303758/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=20 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' + DIRSTACK=() + DISTRIBUTION=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='09bf6ed07b2e4da896fbdfc1596e99a3' - 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='1267562' - PS1='# ' - PS2='> ' + INVOCATION_ID=2d43bc5af2644cdd979bba83827e77ab + 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=1303758 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.2kkvbnaY/pbuilderrc_mbGX --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.2kkvbnaY/b1 --logfile b1/build.log allelecount_4.3.0-2.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://46.16.76.132:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.2kkvbnaY/pbuilderrc_motv --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.2kkvbnaY/b2 --logfile b2/build.log allelecount_4.3.0-2.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos11-amd64 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 13 11:26 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1267562/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jun 14 18:01 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1303758/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -204,7 +236,7 @@ Get: 71 http://deb.debian.org/debian trixie/main amd64 libpod-coverage-perl all 0.23-2 [22.1 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libtest-fatal-perl all 0.017-1 [13.2 kB] -Fetched 26.0 MB in 2s (15.5 MB/s) +Fetched 26.0 MB in 0s (116 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19699 files and directories currently installed.) @@ -513,7 +545,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/allelecount-4.3.0/ && 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 > ../allelecount_4.3.0-2_source.changes +I: user script /srv/workspace/pbuilder/1303758/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1303758/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/allelecount-4.3.0/ && 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 > ../allelecount_4.3.0-2_source.changes dpkg-buildpackage: info: source package allelecount dpkg-buildpackage: info: source version 4.3.0-2 dpkg-buildpackage: info: source distribution unstable @@ -525,7 +561,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/allelecount-4.3.0' dh_auto_clean --sourcedirectory=c - cd c && make -j20 clean + cd c && make -j42 clean make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/c' rm -f ./src/*.o *~ ./bin/alleleCounter ./bin/* ./tests/tests_log ./tests/bam_access_tests ./src/*.gcda ./src/*.gcov ./src/*.gcno *.gcda *.gcov *.gcno ./tests/*.gcda ./tests/*.gcov ./tests/*.gcno make[2]: Leaving directory '/build/reproducible-path/allelecount-4.3.0/c' @@ -550,7 +586,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/allelecount-4.3.0' dh_auto_build --sourcedirectory=c - cd c && make -j20 "INSTALL=install --strip-program=true" + cd c && make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/c' rm -f ./src/*.o *~ ./bin/alleleCounter ./bin/* ./tests/tests_log ./tests/bam_access_tests ./src/*.gcda ./src/*.gcov ./src/*.gcno *.gcda *.gcov *.gcno ./tests/*.gcda ./tests/*.gcov ./tests/*.gcno mkdir -p ./bin @@ -585,7 +621,7 @@ Binaries have been compiled. make[2]: Leaving directory '/build/reproducible-path/allelecount-4.3.0/c' dh_auto_build --sourcedirectory=perl - cd perl && make -j20 + cd perl && make -j42 make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/perl' cp lib/Sanger/CGP/AlleleCount/Genotype.pm blib/lib/Sanger/CGP/AlleleCount/Genotype.pm cp lib/Sanger/CGP/AlleleCount.pm blib/lib/Sanger/CGP/AlleleCount.pm @@ -601,7 +637,7 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/allelecount-4.3.0' dh_auto_test --sourcedirectory=c - cd c && make -j20 test + cd c && make -j42 test make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/c' sh ./tests/runtests.sh Running unit tests: @@ -614,23 +650,23 @@ make[2]: Leaving directory '/build/reproducible-path/allelecount-4.3.0/c' dh_auto_test --sourcedirectory=perl - cd perl && make -j20 test TEST_VERBOSE=1 + cd perl && make -j42 test TEST_VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/perl' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/1_pm_compile.t .. ok 1 - use Sanger::CGP::AlleleCount; -ok 2 - use Sanger::CGP::AlleleCount::ToJson; -ok 3 - use Sanger::CGP::AlleleCount::Genotype; +ok 2 - use Sanger::CGP::AlleleCount::Genotype; +ok 3 - use Sanger::CGP::AlleleCount::ToJson; ok 4 - Check version inheritance exists (Sanger::CGP::AlleleCount) -ok 5 - Check version inheritance exists (Sanger::CGP::AlleleCount::ToJson) -ok 6 - An object of class 'Sanger::CGP::AlleleCount::ToJson' isa 'Sanger::CGP::AlleleCount::ToJson' -ok 7 - Check version inheritance exists (Sanger::CGP::AlleleCount::Genotype) -ok 8 - An object of class 'Sanger::CGP::AlleleCount::Genotype' isa 'Sanger::CGP::AlleleCount::Genotype' +ok 5 - Check version inheritance exists (Sanger::CGP::AlleleCount::Genotype) +ok 6 - An object of class 'Sanger::CGP::AlleleCount::Genotype' isa 'Sanger::CGP::AlleleCount::Genotype' +ok 7 - Check version inheritance exists (Sanger::CGP::AlleleCount::ToJson) +ok 8 - An object of class 'Sanger::CGP::AlleleCount::ToJson' isa 'Sanger::CGP::AlleleCount::ToJson' 1..8 ok t/2_pl_compile.t .. -ok 1 - Compilation check: /build/reproducible-path/allelecount-4.3.0/perl/t/../bin/alleleCounterToJson.pl -ok 2 - Compilation check: /build/reproducible-path/allelecount-4.3.0/perl/t/../bin/alleleCounter.pl +ok 1 - Compilation check: /build/reproducible-path/allelecount-4.3.0/perl/t/../bin/alleleCounter.pl +ok 2 - Compilation check: /build/reproducible-path/allelecount-4.3.0/perl/t/../bin/alleleCounterToJson.pl 1..2 ok t/genotype.t ...... @@ -668,7 +704,7 @@ 1..2 ok All tests successful. -Files=4, Tests=38, 2 wallclock secs ( 0.03 usr 0.01 sys + 0.91 cusr 0.25 csys = 1.20 CPU) +Files=4, Tests=38, 0 wallclock secs ( 0.02 usr 0.01 sys + 0.60 cusr 0.09 csys = 0.72 CPU) Result: PASS make[2]: Leaving directory '/build/reproducible-path/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/reproducible-path/allelecount-4.3.0' @@ -678,19 +714,19 @@ make[1]: Entering directory '/build/reproducible-path/allelecount-4.3.0' dh_auto_install --sourcedirectory=c dh_auto_install --sourcedirectory=perl - cd perl && make -j20 install DESTDIR=/build/reproducible-path/allelecount-4.3.0/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr + cd perl && make -j42 install DESTDIR=/build/reproducible-path/allelecount-4.3.0/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr make[2]: Entering directory '/build/reproducible-path/allelecount-4.3.0/perl' Manifying 2 pod documents Manifying 2 pod documents Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount.pm -Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm +Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounterToJson.pl.1p Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounter.pl.1p -Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm -Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounterToJson.pl +Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounter.pl +Installing /build/reproducible-path/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounterToJson.pl make[2]: Leaving directory '/build/reproducible-path/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/reproducible-path/allelecount-4.3.0' dh_install @@ -712,9 +748,9 @@ dh_gencontrol dh_md5sums dh_builddeb +dpkg-deb: building package 'allelecount' in '../allelecount_4.3.0-2_amd64.deb'. dpkg-deb: building package 'allelecount-dbgsym' in '../allelecount-dbgsym_4.3.0-2_amd64.deb'. dpkg-deb: building package 'liballelecount-perl' in '../liballelecount-perl_4.3.0-2_all.deb'. -dpkg-deb: building package 'allelecount' in '../allelecount_4.3.0-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../allelecount_4.3.0-2_amd64.buildinfo dpkg-genchanges --build=binary -O../allelecount_4.3.0-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -722,12 +758,14 @@ 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/1303758/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1303758/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/1267562 and its subdirectories -I: Current time: Tue May 14 16:50:23 -12 2024 -I: pbuilder-time-stamp: 1715748623 +I: removing directory /srv/workspace/pbuilder/1303758 and its subdirectories +I: Current time: Wed Jun 18 01:14:06 +14 2025 +I: pbuilder-time-stamp: 1750158846