Diff of the two buildlogs: -- --- b1/build.log 2025-11-05 06:00:38.230063651 +0000 +++ b2/build.log 2025-11-05 06:01:31.786122880 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Dec 7 23:52:01 -12 2026 -I: pbuilder-time-stamp: 1796730721 +I: Current time: Wed Nov 5 20:00:41 +14 2025 +I: pbuilder-time-stamp: 1762322441 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -26,53 +26,85 @@ dpkg-source: info: applying hardening.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/127067/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1207384/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 Nov 5 06:00 /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/1207384/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1207384/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='forky' - 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]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.3.3(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=40 nocheck' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='7bcfa1fd0aa94d16be4a3d7770fa7c6a' - 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='127067' - PS1='# ' - PS2='> ' + INVOCATION_ID=b9c47e42a7f1496cba3cad140a0306b5 + 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=1207384 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.Na08XVjt/pbuilderrc_dPGi --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Na08XVjt/b1 --logfile b1/build.log nxtrim_0.4.3+dfsg-6.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - 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.Na08XVjt/pbuilderrc_sw5W --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Na08XVjt/b2 --logfile b2/build.log nxtrim_0.4.3+dfsg-6.dsc' + SUDO_GID=111 + SUDO_HOME=/var/lib/jenkins + 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 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/127067/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1207384/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -140,7 +172,7 @@ Get: 28 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 12.2 MB in 0s (84.9 MB/s) +Fetched 12.2 MB in 4s (3117 kB/s) Preconfiguring packages ... 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 ... 19862 files and directories currently installed.) @@ -281,7 +313,11 @@ Solving dependencies... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/nxtrim-0.4.3+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 > ../nxtrim_0.4.3+dfsg-6_source.changes +I: user script /srv/workspace/pbuilder/1207384/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/1207384/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/nxtrim-0.4.3+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 > ../nxtrim_0.4.3+dfsg-6_source.changes dpkg-buildpackage: info: source package nxtrim dpkg-buildpackage: info: source version 0.4.3+dfsg-6 dpkg-buildpackage: info: source distribution unstable @@ -291,7 +327,7 @@ debian/rules clean dh clean dh_auto_clean - make -j42 clean + make -j40 clean make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' make[1]: git: No such file or directory rm -f matepair.o fastqlib.o utilityfunc.o nxtrim version.h @@ -305,7 +341,7 @@ dh_autoreconf dh_auto_configure dh_auto_build - make -j42 INSTALL="install --strip-program=true" + make -j40 INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' make[1]: git: No such file or directory g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o matepair.o matepair.cpp @@ -314,155 +350,6 @@ echo '#define VERSION "v0.4.3"' > version.h g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/nxtrim-0.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection nxtrim.cpp matepair.o fastqlib.o utilityfunc.o -lz -o nxtrim -Wl,-z,relro -Wl,-z,now make[1]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' - debian/rules override_dh_auto_test -make[1]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' -cp -a example example.bak -dh_auto_test - make -j42 test -make[2]: Entering directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' -make[2]: git: No such file or directory -bash -e example/run_test.sh -Output: example/ENA.*.fastq.gz -Trimming: -R1: example/ENA_R1.fastq.gz -R2: example/ENA_R2.fastq.gz - -Trimming summary: -1 / 1 ( 100.00% ) reads passed chastity/purity filters. -0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). -0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length -1 remaining reads were trimmed - -0 / 1 ( 0.00% ) read pairs had MP orientation -1 / 1 ( 100.00% ) read pairs had PE orientation -0 / 1 ( 0.00% ) read pairs had unknown orientation -0 / 1 ( 0.00% ) were single end reads - -0 / 1 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/example11.*.fastq.gz -Trimming: -R1: example/example11_R1.fastq.gz -R2: example/example11_R2.fastq.gz -WARNING: reads with differing lengths. Has this data already been processed with nxtrim? - -Trimming summary: -1 / 1 ( 100.00% ) reads passed chastity/purity filters. -0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). -0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length -1 remaining reads were trimmed - -0 / 1 ( 0.00% ) read pairs had MP orientation -0 / 1 ( 0.00% ) read pairs had PE orientation -1 / 1 ( 100.00% ) read pairs had unknown orientation -0 / 1 ( 0.00% ) were single end reads - -0 / 1 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/EXTERNAL.*.fastq.gz -Trimming: -R1: example/EXTERNAL_R1.fastq.gz -R2: example/EXTERNAL_R2.fastq.gz - -Trimming summary: -1 / 1 ( 100.00% ) reads passed chastity/purity filters. -0 / 1 ( 0.00% ) reads had multiple copies of adapter (filtered). -0 / 1 ( 0.00% ) read pairs were ignored because template length appeared less than read length -1 remaining reads were trimmed - -0 / 1 ( 0.00% ) read pairs had MP orientation -1 / 1 ( 100.00% ) read pairs had PE orientation -0 / 1 ( 0.00% ) read pairs had unknown orientation -0 / 1 ( 0.00% ) were single end reads - -0 / 1 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/FailPF.*.fastq.gz -Trimming: -R1: example/FailPF_R1.fastq.gz -R2: example/FailPF_R2.fastq.gz - -Trimming summary: -0 / 1 ( 0.00% ) reads passed chastity/purity filters. -0 / 0 ( -nan% ) reads had multiple copies of adapter (filtered). -0 / 0 ( -nan% ) read pairs were ignored because template length appeared less than read length -0 remaining reads were trimmed - -0 / 0 ( -nan% ) read pairs had MP orientation -0 / 0 ( -nan% ) read pairs had PE orientation -0 / 0 ( -nan% ) read pairs had unknown orientation -0 / 0 ( -nan% ) were single end reads - -0 / 0 ( -nan% ) extra single end reads were generated from overhangs -Output: example/MP.*.fastq.gz -Trimming: -R1: example/MP_R1.fastq.gz -R2: example/MP_R2.fastq.gz - -Trimming summary: -54 / 54 ( 100.00% ) reads passed chastity/purity filters. -0 / 54 ( 0.00% ) reads had multiple copies of adapter (filtered). -0 / 54 ( 0.00% ) read pairs were ignored because template length appeared less than read length -54 remaining reads were trimmed - -54 / 54 ( 100.00% ) read pairs had MP orientation -0 / 54 ( 0.00% ) read pairs had PE orientation -0 / 54 ( 0.00% ) read pairs had unknown orientation -0 / 54 ( 0.00% ) were single end reads - -0 / 54 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/PE.*.fastq.gz -Trimming: -R1: example/PE_R1.fastq.gz -R2: example/PE_R2.fastq.gz - -Trimming summary: -55 / 55 ( 100.00% ) reads passed chastity/purity filters. -0 / 55 ( 0.00% ) reads had multiple copies of adapter (filtered). -1 / 55 ( 1.82% ) read pairs were ignored because template length appeared less than read length -54 remaining reads were trimmed - -0 / 54 ( 0.00% ) read pairs had MP orientation -54 / 54 ( 100.00% ) read pairs had PE orientation -0 / 54 ( 0.00% ) read pairs had unknown orientation -0 / 54 ( 0.00% ) were single end reads - -0 / 54 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/sample.*.fastq.gz -Trimming: -R1: example/sample_R1.fastq.gz -R2: example/sample_R2.fastq.gz - -Trimming summary: -163 / 163 ( 100.00% ) reads passed chastity/purity filters. -0 / 163 ( 0.00% ) reads had multiple copies of adapter (filtered). -1 / 163 ( 0.61% ) read pairs were ignored because template length appeared less than read length -162 remaining reads were trimmed - -54 / 162 ( 33.33% ) read pairs had MP orientation -54 / 162 ( 33.33% ) read pairs had PE orientation -54 / 162 ( 33.33% ) read pairs had unknown orientation -0 / 162 ( 0.00% ) were single end reads - -0 / 162 ( 0.00% ) extra single end reads were generated from overhangs -Output: example/UNKNOWN.*.fastq.gz -Trimming: -R1: example/UNKNOWN_R1.fastq.gz -R2: example/UNKNOWN_R2.fastq.gz - -Trimming summary: -54 / 54 ( 100.00% ) reads passed chastity/purity filters. -0 / 54 ( 0.00% ) reads had multiple copies of adapter (filtered). -0 / 54 ( 0.00% ) read pairs were ignored because template length appeared less than read length -54 remaining reads were trimmed - -0 / 54 ( 0.00% ) read pairs had MP orientation -0 / 54 ( 0.00% ) read pairs had PE orientation -54 / 54 ( 100.00% ) read pairs had unknown orientation -0 / 54 ( 0.00% ) were single end reads - -0 / 54 ( 0.00% ) extra single end reads were generated from overhangs -make[2]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' -rm -rf example -mv example.bak example -make[1]: Leaving directory '/build/reproducible-path/nxtrim-0.4.3+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/nxtrim/ @@ -484,8 +371,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'nxtrim-dbgsym' in '../nxtrim-dbgsym_0.4.3+dfsg-6_amd64.deb'. dpkg-deb: building package 'nxtrim' in '../nxtrim_0.4.3+dfsg-6_amd64.deb'. +dpkg-deb: building package 'nxtrim-dbgsym' in '../nxtrim-dbgsym_0.4.3+dfsg-6_amd64.deb'. dpkg-genbuildinfo --build=binary -O../nxtrim_0.4.3+dfsg-6_amd64.buildinfo dpkg-genchanges --build=binary -O../nxtrim_0.4.3+dfsg-6_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -493,12 +380,14 @@ 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/1207384/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1207384/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/127067 and its subdirectories -I: Current time: Tue Dec 8 00:23:37 -12 2026 -I: pbuilder-time-stamp: 1796732617 +I: removing directory /srv/workspace/pbuilder/1207384 and its subdirectories +I: Current time: Wed Nov 5 20:01:31 +14 2025 +I: pbuilder-time-stamp: 1762322491