Diff of the two buildlogs: -- --- b1/build.log 2025-09-11 13:24:25.517563553 +0000 +++ b2/build.log 2025-09-11 13:26:16.625701720 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Sep 11 01:23:20 -12 2025 -I: pbuilder-time-stamp: 1757597000 +I: Current time: Thu Oct 15 09:47:27 +14 2026 +I: pbuilder-time-stamp: 1792007247 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -25,53 +25,85 @@ dpkg-source: info: applying hardening I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3125190/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/754958/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +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 Oct 14 19:47 /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/754958/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/754958/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='arm64' - 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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='3ef97340f7d04814bd2dd058636a8b44' - 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='3125190' - PS1='# ' - PS2='> ' + INVOCATION_ID=73183e87f3674155a913c241fee608a9 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=754958 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.dGEf52Pi/pbuilderrc_NwnW --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.dGEf52Pi/b1 --logfile b1/build.log r-bioc-rhdf5filters_1.18.1+dfsg-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.dGEf52Pi/pbuilderrc_oJII --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.dGEf52Pi/b2 --logfile b2/build.log r-bioc-rhdf5filters_1.18.1+dfsg-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3125190/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/754958/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -370,7 +402,7 @@ Get: 241 http://deb.debian.org/debian forky/main arm64 libvbz-hdf-plugin-dev arm64 1.0.2-3.1 [14.9 kB] Get: 242 http://deb.debian.org/debian forky/main arm64 r-bioc-biocgenerics all 0.52.0-2 [627 kB] Get: 243 http://deb.debian.org/debian forky/main arm64 r-bioc-rhdf5lib arm64 1.28.0+dfsg-2 [104 kB] -Fetched 187 MB in 1s (146 MB/s) +Fetched 187 MB in 1s (144 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 21045 files and directories currently installed.) @@ -1164,8 +1196,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu Sep 11 13:24:03 UTC 2025. -Universal Time is now: Thu Sep 11 13:24:03 UTC 2025. +Local time is now: Wed Oct 14 19:48:15 UTC 2026. +Universal Time is now: Wed Oct 14 19:48:15 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libvbz-hdf-plugin0t64:arm64 (1.0.2-3.1) ... @@ -1390,7 +1422,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/r-bioc-rhdf5filters-1.18.1+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 > ../r-bioc-rhdf5filters_1.18.1+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/754958/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/754958/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/r-bioc-rhdf5filters-1.18.1+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 > ../r-bioc-rhdf5filters_1.18.1+dfsg-1_source.changes dpkg-buildpackage: info: source package r-bioc-rhdf5filters dpkg-buildpackage: info: source version 1.18.1+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -1434,7 +1470,7 @@ dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R - rm -fr -- /tmp/dh-xdg-rundir-3jWw1MTF + rm -fr -- /tmp/dh-xdg-rundir-ApMhA0BR create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R @@ -1612,21 +1648,21 @@ objcopy --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/debug/.dwz/aarch64-linux-gnu/r-bioc-rhdf5filters.debug chmod 0644 -- debian/r-bioc-rhdf5filters/usr/lib/debug/.dwz/aarch64-linux-gnu/r-bioc-rhdf5filters.debug dh_strip -a -O--buildsystem=R - install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32 - objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug - chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so - objcopy --add-gnu-debuglink debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so - install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54 - objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug - chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so - objcopy --add-gnu-debuglink debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/18 objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zbz2.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/18/2895af69aae33b6b0809317e8fb96f030004c1.debug chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/18/2895af69aae33b6b0809317e8fb96f030004c1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zbz2.so objcopy --add-gnu-debuglink debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/18/2895af69aae33b6b0809317e8fb96f030004c1.debug debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zbz2.so + install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54 + objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug + chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so + objcopy --add-gnu-debuglink debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/54/c503fc03985496486516e4ba9c937a5313f24b.debug debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so + install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32 + objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug + chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so + objcopy --add-gnu-debuglink debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/32/dcbba65127c1a90ceecbd40d3d52cec13c9643.debug debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so install -m0755 -d debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/3c objcopy --only-keep-debug --compress-debug-sections debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zlzf.so debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/3c/8a76f783b80d81cfb9ecd9eae62b5ea04333e9.debug chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/usr/lib/debug/.build-id/3c/8a76f783b80d81cfb9ecd9eae62b5ea04333e9.debug @@ -1653,7 +1689,7 @@ mv debian/.debhelper/generated/r-bioc-rhdf5filters/triggers.new debian/.debhelper/generated/r-bioc-rhdf5filters/triggers dh_shlibdeps -a -O--buildsystem=R install -m0755 -d debian/r-bioc-rhdf5filters/DEBIAN - dpkg-shlibdeps -Tdebian/r-bioc-rhdf5filters.substvars debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zbz2.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zlzf.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zvbz.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/libs/rhdf5filters.so + dpkg-shlibdeps -Tdebian/r-bioc-rhdf5filters.substvars debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zbz2.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zzstd.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zblosc.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zlzf.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/lib/libH5Zvbz.so debian/r-bioc-rhdf5filters/usr/lib/R/site-library/rhdf5filters/libs/rhdf5filters.so dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect @@ -1678,8 +1714,8 @@ cd debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=R - dpkg-deb --root-owner-group --build debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root .. dpkg-deb --root-owner-group --build debian/r-bioc-rhdf5filters .. + dpkg-deb --root-owner-group --build debian/.debhelper/r-bioc-rhdf5filters/dbgsym-root .. dpkg-deb: building package 'r-bioc-rhdf5filters-dbgsym' in '../r-bioc-rhdf5filters-dbgsym_1.18.1+dfsg-1_arm64.deb'. dpkg-deb: building package 'r-bioc-rhdf5filters' in '../r-bioc-rhdf5filters_1.18.1+dfsg-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-rhdf5filters_1.18.1+dfsg-1_arm64.buildinfo @@ -1689,12 +1725,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/754958/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/754958/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/3125190 and its subdirectories -I: Current time: Thu Sep 11 01:24:24 -12 2025 -I: pbuilder-time-stamp: 1757597064 +I: removing directory /srv/workspace/pbuilder/754958 and its subdirectories +I: Current time: Thu Oct 15 09:49:15 +14 2026 +I: pbuilder-time-stamp: 1792007355