Diff of the two buildlogs:
--
--- b1/build.log 2024-01-08 05:41:13.841911190 +0000
+++ b2/build.log 2024-01-08 05:44:58.568267414 +0000
@@ -1,6 +1,6 @@
I: pbuilder: network access will be disabled during build
-I: Current time: Sun Jan 7 17:39:22 -12 2024
-I: pbuilder-time-stamp: 1704692362
+I: Current time: Mon Feb 10 02:04:15 +14 2025
+I: pbuilder-time-stamp: 1739102655
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz]
I: copying local configuration
@@ -32,49 +32,81 @@
dpkg-source: info: applying biopython-1.80.patch
I: Not using root during the build.
I: Installing the build-deps
-I: user script /srv/workspace/pbuilder/2907629/tmp/hooks/D02_print_environment starting
+I: user script /srv/workspace/pbuilder/3612607/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 Feb 9 12:04 /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/3612607/tmp/hooks/D01_modify_environment finished
+I: user script /srv/workspace/pbuilder/3612607/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]="2" [2]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu")
+ BASH_VERSION='5.2.15(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='bookworm'
- HOME='/root'
- HOST_ARCH='arm64'
+ DIRSTACK=()
+ DISTRIBUTION=bookworm
+ EUID=0
+ FUNCNAME=([0]="Echo" [1]="main")
+ GROUPS=()
+ HOME=/root
+ HOSTNAME=i-capture-the-hostname
+ HOSTTYPE=aarch64
+ HOST_ARCH=arm64
IFS='
'
- INVOCATION_ID='741d765f24f44a3da13f9a09e7a4901d'
- 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='2907629'
- PS1='# '
- PS2='> '
+ INVOCATION_ID=e19dc39be37d4d23a04a0e58ad7c0e59
+ 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=3612607
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.Hf8aUBzO/pbuilderrc_yex4 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Hf8aUBzO/b1 --logfile b1/build.log python-pyfaidx_0.7.1-2.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'
- http_proxy='http://192.168.101.104:3128'
+ 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.Hf8aUBzO/pbuilderrc_wUao --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Hf8aUBzO/b2 --logfile b2/build.log python-pyfaidx_0.7.1-2.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'
+ http_proxy=http://192.168.101.104:3128
I: uname -a
- Linux codethink02-arm64 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux
+ Linux i-capture-the-hostname 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux
I: ls -l /bin
total 7104
-rwxr-xr-x 1 root root 1346480 Apr 23 2023 bash
@@ -132,15 +164,15 @@
-rwxr-xr-x 1 root root 68456 Sep 20 2022 readlink
-rwxr-xr-x 1 root root 68592 Sep 20 2022 rm
-rwxr-xr-x 1 root root 68480 Sep 20 2022 rmdir
- -rwxr-xr-x 1 root root 68392 Jul 28 23:46 run-parts
+ -rwxr-xr-x 1 root root 68392 Jul 28 2023 run-parts
-rwxr-xr-x 1 root root 134536 Jan 5 2023 sed
- lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash
+ lrwxrwxrwx 1 root root 9 Feb 9 12:04 sh -> /bin/bash
-rwxr-xr-x 1 root root 68432 Sep 20 2022 sleep
-rwxr-xr-x 1 root root 134088 Sep 20 2022 stty
-rwsr-xr-x 1 root root 133312 Mar 23 2023 su
-rwxr-xr-x 1 root root 68448 Sep 20 2022 sync
-rwxr-xr-x 1 root root 539896 Apr 6 2023 tar
- -rwxr-xr-x 1 root root 67904 Jul 28 23:46 tempfile
+ -rwxr-xr-x 1 root root 67904 Jul 28 2023 tempfile
-rwxr-xr-x 1 root root 134160 Sep 20 2022 touch
-rwxr-xr-x 1 root root 68384 Sep 20 2022 true
-rwxr-xr-x 1 root root 67664 Mar 23 2023 ulockmgr_server
@@ -160,7 +192,7 @@
-rwxr-xr-x 1 root root 2206 Apr 10 2022 zless
-rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore
-rwxr-xr-x 1 root root 4577 Apr 10 2022 znew
-I: user script /srv/workspace/pbuilder/2907629/tmp/hooks/D02_print_environment finished
+I: user script /srv/workspace/pbuilder/3612607/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
@@ -333,7 +365,7 @@
Get: 111 http://deb.debian.org/debian bookworm/main arm64 python3-pytest all 7.2.1-2 [236 kB]
Get: 112 http://deb.debian.org/debian bookworm/main arm64 samtools arm64 1.16.1-1 [580 kB]
Get: 113 http://deb.debian.org/debian bookworm/main arm64 tabix arm64 1.16+ds-3 [427 kB]
-Fetched 55.9 MB in 1s (67.1 MB/s)
+Fetched 55.9 MB in 1s (86.9 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libpython3.11-minimal: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 ... 18171 files and directories currently installed.)
@@ -808,7 +840,11 @@
Building tag database...
-> Finished parsing the build-deps
I: Building the package
-I: Running cd /build/reproducible-path/python-pyfaidx-0.7.1/ && 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 > ../python-pyfaidx_0.7.1-2_source.changes
+I: user script /srv/workspace/pbuilder/3612607/tmp/hooks/A99_set_merged_usr starting
+Not re-configuring usrmerge for bookworm
+I: user script /srv/workspace/pbuilder/3612607/tmp/hooks/A99_set_merged_usr finished
+hostname: Name or service not known
+I: Running cd /build/reproducible-path/python-pyfaidx-0.7.1/ && 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 > ../python-pyfaidx_0.7.1-2_source.changes
dpkg-buildpackage: info: source package python-pyfaidx
dpkg-buildpackage: info: source version 0.7.1-2
dpkg-buildpackage: info: source distribution unstable
@@ -818,7 +854,7 @@
debian/rules clean
LC_ALL=C.UTF-8 dh clean --with python3 --buildsystem=pybuild
debian/rules override_dh_auto_clean
-make[1]: Entering directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt binnengegaan
dh_auto_clean
I: pybuild base:240: python3.11 setup.py clean
running clean
@@ -828,7 +864,7 @@
rm -f .coverage
rm -f tests/data/genes.fasta.gz
rm -rf pyfaidx.egg-info
-make[1]: Leaving directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt verlaten
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary
@@ -846,7 +882,7 @@
copying pyfaidx/__init__.py -> /build/reproducible-path/python-pyfaidx-0.7.1/.pybuild/cpython3_3.11_pyfaidx/build/pyfaidx
copying pyfaidx/cli.py -> /build/reproducible-path/python-pyfaidx-0.7.1/.pybuild/cpython3_3.11_pyfaidx/build/pyfaidx
debian/rules override_dh_auto_test
-make[1]: Entering directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt binnengegaan
bgzip -c tests/data/genes.fasta > tests/data/genes.fasta.gz
dh_auto_test
I: pybuild base:240: cd /build/reproducible-path/python-pyfaidx-0.7.1/.pybuild/cpython3_3.11_pyfaidx/build; python3.11 -m pytest tests
@@ -875,8 +911,8 @@
tests/test_fsspec.py ssss [ 93%]
tests/test_sequence_class.py ......... [100%]
-================== 123 passed, 10 skipped, 2 xfailed in 9.42s ==================
-make[1]: Leaving directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+================= 123 passed, 10 skipped, 2 xfailed in 35.48s ==================
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt verlaten
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=pybuild
dh_prep -O--buildsystem=pybuild
@@ -930,17 +966,17 @@
dh_link -O--buildsystem=pybuild
dh_strip_nondeterminism -O--buildsystem=pybuild
debian/rules override_dh_compress
-make[1]: Entering directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt binnengegaan
dh_compress --exclude=gz.tbi
-make[1]: Leaving directory '/build/reproducible-path/python-pyfaidx-0.7.1'
+make[1]: Map '/build/reproducible-path/python-pyfaidx-0.7.1' wordt verlaten
dh_fixperms -O--buildsystem=pybuild
dh_missing -O--buildsystem=pybuild
dh_installdeb -O--buildsystem=pybuild
dh_gencontrol -O--buildsystem=pybuild
dh_md5sums -O--buildsystem=pybuild
dh_builddeb -O--buildsystem=pybuild
-dpkg-deb: building package 'python3-pyfaidx' in '../python3-pyfaidx_0.7.1-2_all.deb'.
-dpkg-deb: building package 'python-pyfaidx-examples' in '../python-pyfaidx-examples_0.7.1-2_all.deb'.
+dpkg-deb: pakket 'python3-pyfaidx' wordt gebouwd in '../python3-pyfaidx_0.7.1-2_all.deb'.
+dpkg-deb: pakket 'python-pyfaidx-examples' wordt gebouwd in '../python-pyfaidx-examples_0.7.1-2_all.deb'.
dpkg-genbuildinfo --build=binary -O../python-pyfaidx_0.7.1-2_arm64.buildinfo
dpkg-genchanges --build=binary -O../python-pyfaidx_0.7.1-2_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
@@ -948,12 +984,14 @@
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/3612607/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/3612607/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/2907629 and its subdirectories
-I: Current time: Sun Jan 7 17:41:12 -12 2024
-I: pbuilder-time-stamp: 1704692472
+I: removing directory /srv/workspace/pbuilder/3612607 and its subdirectories
+I: Current time: Mon Feb 10 02:07:56 +14 2025
+I: pbuilder-time-stamp: 1739102876