Diff of the two buildlogs: -- --- b1/build.log 2025-03-05 15:21:37.623049818 +0000 +++ b2/build.log 2025-03-05 15:23:27.998058394 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Apr 7 09:43:53 -12 2026 -I: pbuilder-time-stamp: 1775598233 +I: Current time: Thu Mar 6 05:21:40 +14 2025 +I: pbuilder-time-stamp: 1741188100 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying 2to3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2317896/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2634994/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Mar 5 15:22 /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/2634994/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2634994/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='ab51cf820bcc41199fb52a255e134f13' - 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='2317896' - PS1='# ' - PS2='> ' + INVOCATION_ID=26a30a482b7442318040ef34350ec594 + 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=2634994 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.oR3sKsgB/pbuilderrc_RjeR --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.oR3sKsgB/b1 --logfile b1/build.log aegean_0.16.0+dfsg-4.dsc' - SUDO_GID='110' - SUDO_UID='105' - 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.oR3sKsgB/pbuilderrc_90qL --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.oR3sKsgB/b2 --logfile b2/build.log aegean_0.16.0+dfsg-4.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2317896/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2634994/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -249,7 +281,7 @@ Get: 130 http://deb.debian.org/debian trixie/main amd64 lua-md5 amd64 1.2+git+1+8d87fee-2+b2 [13.7 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 libgenometools0t64 amd64 1.6.5+ds-2.2 [1420 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 libgenometools0-dev amd64 1.6.5+ds-2.2 [95.2 kB] -Fetched 49.6 MB in 5s (9647 kB/s) +Fetched 49.6 MB in 6s (8036 kB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-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 ... 19800 files and directories currently installed.) @@ -690,8 +722,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Apr 7 21:44:21 UTC 2026. -Universal Time is now: Tue Apr 7 21:44:21 UTC 2026. +Local time is now: Wed Mar 5 15:22:53 UTC 2025. +Universal Time is now: Wed Mar 5 15:22:53 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libsysprof-capture-4-dev:amd64 (48~beta-2) ... @@ -808,7 +840,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/aegean-0.16.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../aegean_0.16.0+dfsg-4_source.changes +I: user script /srv/workspace/pbuilder/2634994/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2634994/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/aegean-0.16.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../aegean_0.16.0+dfsg-4_source.changes dpkg-buildpackage: info: source package aegean dpkg-buildpackage: info: source version 0.16.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable @@ -820,7 +856,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' dh_auto_clean - make -j42 clean + make -j20 clean make[2]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' rm -rf bin/parseval bin/canon-gff3 bin/locuspocus bin/gaeval bin/xtractore bin/pmrna bin/tidygff3 bin/unittests libaegean.a obj/AgnAttributeFilterStream.o obj/AgnCliquePair.o obj/AgnCompareReportHTML.o obj/AgnCompareReportText.o obj/AgnComparison.o obj/AgnFilterStream.o obj/AgnGaevalVisitor.o obj/AgnGeneStream.o obj/AgnInferCDSVisitor.o obj/AgnInferExonsVisitor.o obj/AgnInferParentStream.o obj/AgnLocus.o obj/AgnLocusFilterStream.o obj/AgnLocusMapVisitor.o obj/AgnLocusRefineStream.o obj/AgnLocusStream.o obj/AgnMrnaRepVisitor.o obj/AgnPseudogeneFixVisitor.o obj/AgnRemoveChildrenVisitor.o obj/AgnTranscriptClique.o obj/AgnTypecheck.o obj/AgnUnitTest.o obj/AgnUtils.o inc/core/AgnVersion.h bin/*.dSYM make[2]: Leaving directory '/build/reproducible-path/aegean-0.16.0+dfsg' @@ -835,7 +871,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' dh_auto_build -- prefix=/build/reproducible-path/aegean-0.16.0+dfsg/debian/tmp 64bit=yes errorcheck=no - make -j42 "INSTALL=install --strip-program=true" prefix=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/tmp 64bit=yes errorcheck=no + make -j20 "INSTALL=install --strip-program=true" prefix=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/tmp 64bit=yes errorcheck=no make[2]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' [print inc/core/AgnVersion.h] /build/reproducible-path/aegean-0.16.0+dfsg/data/scripts/version.py:31: SyntaxWarning: invalid escape sequence '\S' @@ -855,13 +891,6 @@ [compile AgnInferParentStream] [compile AgnLocus] [compile AgnLocusFilterStream] -[compile AgnLocusMapVisitor] -[compile AgnLocusRefineStream] -[compile AgnLocusStream] -[compile AgnMrnaRepVisitor] -[compile AgnPseudogeneFixVisitor] -[compile AgnRemoveChildrenVisitor] -[compile AgnTranscriptClique] src/core/AgnCompareReportText.c: In function ‘compare_report_text_comp_class_summary’: src/core/AgnCompareReportText.c:287:3: warning: ‘__builtin___strncpy_chk’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 287 | strncpy(header + 4, label, strlen(label)); @@ -869,9 +898,10 @@ src/core/AgnCompareReportText.c:287:3: note: length computed here 287 | strncpy(header + 4, label, strlen(label)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[compile AgnTypecheck] -[compile AgnUnitTest] -[compile AgnUtils] +[compile AgnLocusMapVisitor] +[compile AgnLocusRefineStream] +[compile AgnLocusStream] +[compile AgnMrnaRepVisitor] src/core/AgnCompareReportText.c: In function ‘compare_report_text_summary_struc’: src/core/AgnCompareReportText.c:589:3: warning: ‘__builtin___strncpy_chk’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 589 | strncpy(buffer + 14, units, strlen(units)); @@ -885,6 +915,12 @@ src/core/AgnCompareReportText.c:599:3: note: length computed here 599 | strncpy(buffer + 15, units, strlen(units)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[compile AgnPseudogeneFixVisitor] +[compile AgnRemoveChildrenVisitor] +[compile AgnTranscriptClique] +[compile AgnTypecheck] +[compile AgnUnitTest] +[compile AgnUtils] [compile ParsEval] [compile CanonGFF3] [compile LocusPocus] @@ -901,7 +937,7 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' dh_auto_test -- useshared=yes 64bit=yes testthreads=5 - make -j42 test useshared=yes 64bit=yes testthreads=5 + make -j20 test useshared=yes 64bit=yes testthreads=5 make[2]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' AEGeAn Unit Tests AEGeAn::AgnAttributeFilterStream | SUCCESS @@ -1033,7 +1069,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' dh_auto_install -- 64bit=yes prefix=/build/reproducible-path/aegean-0.16.0+dfsg/debian/tmp - make -j42 install DESTDIR=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/aegean AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" 64bit=yes prefix=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/tmp + make -j20 install DESTDIR=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/aegean AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" 64bit=yes prefix=/build/reproducible-path/aegean-0.16.0\+dfsg/debian/tmp make[2]: Entering directory '/build/reproducible-path/aegean-0.16.0+dfsg' cp bin/parseval bin/canon-gff3 bin/locuspocus bin/gaeval bin/xtractore bin/pmrna bin/tidygff3 /build/reproducible-path/aegean-0.16.0+dfsg/debian/tmp/bin/. cp libaegean.a /build/reproducible-path/aegean-0.16.0+dfsg/debian/tmp/lib/. @@ -1136,12 +1172,14 @@ 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/2634994/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2634994/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/2317896 and its subdirectories -I: Current time: Tue Apr 7 09:44:35 -12 2026 -I: pbuilder-time-stamp: 1775598275 +I: removing directory /srv/workspace/pbuilder/2634994 and its subdirectories +I: Current time: Thu Mar 6 05:23:27 +14 2025 +I: pbuilder-time-stamp: 1741188207