Diff of the two buildlogs: -- --- b1/build.log 2025-03-21 08:18:33.729236579 +0000 +++ b2/build.log 2025-03-21 08:21:30.757229055 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Mar 20 19:59:38 -12 2025 -I: pbuilder-time-stamp: 1742543978 +I: Current time: Fri Apr 24 04:41:38 +14 2026 +I: pbuilder-time-stamp: 1776955298 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying fix_reading_fasta.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2382280/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4037099/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 Apr 23 14:42 /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/4037099/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4037099/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]="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=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='d062714f922d4f98b34127d49e57c474' - 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='2382280' - PS1='# ' - PS2='> ' + INVOCATION_ID=3f873a83926049ad9bbf9502d2f095e9 + 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=4037099 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.VRRFLB8q/pbuilderrc_dPQf --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.VRRFLB8q/b1 --logfile b1/build.log kraken2_2.1.3-1.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://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.VRRFLB8q/pbuilderrc_6vpT --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.VRRFLB8q/b2 --logfile b2/build.log kraken2_2.1.3-1.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 ionos1-amd64 6.1.0-32-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.129-1 (2025-03-06) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2382280/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/4037099/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: 29 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 21.5 MB in 17s (1262 kB/s) +Fetched 21.5 MB in 1s (28.2 MB/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 ... 19785 files and directories currently installed.) @@ -279,7 +311,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/kraken2-2.1.3/ && 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 > ../kraken2_2.1.3-1_source.changes +I: user script /srv/workspace/pbuilder/4037099/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/4037099/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/kraken2-2.1.3/ && 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 > ../kraken2_2.1.3-1_source.changes dpkg-buildpackage: info: source package kraken2 dpkg-buildpackage: info: source version 2.1.3-1 dpkg-buildpackage: info: source distribution unstable @@ -289,7 +325,7 @@ debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src - cd src && make -j20 clean + cd src && make -j42 clean make[1]: Entering directory '/build/reproducible-path/kraken2-2.1.3/src' rm -f *.o estimate_capacity build_db classify dump_table lookup_accession_numbers k2mask make[1]: Leaving directory '/build/reproducible-path/kraken2-2.1.3/src' @@ -301,7 +337,7 @@ dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src - cd src && make -j20 "INSTALL=install --strip-program=true" + cd src && make -j42 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/kraken2-2.1.3/src' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o estimate_capacity.o estimate_capacity.cc g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seqreader.o seqreader.cc @@ -319,12 +355,12 @@ g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o dump_table.o dump_table.cc g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lookup_accession_numbers.o lookup_accession_numbers.cc g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -Wdate-time -D_FORTIFY_SOURCE=2 -c -o k2mask.o k2mask.cc -g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o lookup_accession_numbers lookup_accession_numbers.o mmap_file.o omp_hack.o utilities.o -Wl,-z,relro -Wl,-z,now g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o estimate_capacity estimate_capacity.o seqreader.o mmscanner.o omp_hack.o utilities.o -Wl,-z,relro -Wl,-z,now -g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o build_db build_db.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o utilities.o -Wl,-z,relro -Wl,-z,now +g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o lookup_accession_numbers lookup_accession_numbers.o mmap_file.o omp_hack.o utilities.o -Wl,-z,relro -Wl,-z,now g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o dump_table dump_table.o mmap_file.o compact_hash.o omp_hack.o taxonomy.o reports.o hyperloglogplus.o -Wl,-z,relro -Wl,-z,now -g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o classify classify.o reports.o hyperloglogplus.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o aa_translate.o utilities.o -Wl,-z,relro -Wl,-z,now +g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o build_db build_db.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o utilities.o -Wl,-z,relro -Wl,-z,now g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o k2mask k2mask.o seqreader.o -lz -pthread +g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kraken2-2.1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fopenmp -Wall -std=c++11 -O3 -DLINEAR_PROBING -o classify classify.o reports.o hyperloglogplus.o mmap_file.o compact_hash.o taxonomy.o seqreader.o mmscanner.o omp_hack.o aa_translate.o utilities.o -Wl,-z,relro -Wl,-z,now make[1]: Leaving directory '/build/reproducible-path/kraken2-2.1.3/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp @@ -334,7 +370,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/kraken2-2.1.3' dh_auto_install -- KRAKEN2_DIR=/build/reproducible-path/kraken2-2.1.3/debian/kraken2/usr/lib/kraken2 - cd src && make -j20 install DESTDIR=/build/reproducible-path/kraken2-2.1.3/debian/kraken2 AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" KRAKEN2_DIR=/build/reproducible-path/kraken2-2.1.3/debian/kraken2/usr/lib/kraken2 + cd src && make -j42 install DESTDIR=/build/reproducible-path/kraken2-2.1.3/debian/kraken2 AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" KRAKEN2_DIR=/build/reproducible-path/kraken2-2.1.3/debian/kraken2/usr/lib/kraken2 make[2]: Entering directory '/build/reproducible-path/kraken2-2.1.3/src' cp estimate_capacity build_db classify dump_table lookup_accession_numbers k2mask "/build/reproducible-path/kraken2-2.1.3/debian/kraken2/usr/lib/kraken2/" make[2]: Leaving directory '/build/reproducible-path/kraken2-2.1.3/src' @@ -386,8 +422,8 @@ dpkg-gencontrol: warning: package kraken2: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src -dpkg-deb: building package 'kraken2-dbgsym' in '../kraken2-dbgsym_2.1.3-1_amd64.deb'. dpkg-deb: building package 'kraken2' in '../kraken2_2.1.3-1_amd64.deb'. +dpkg-deb: building package 'kraken2-dbgsym' in '../kraken2-dbgsym_2.1.3-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../kraken2_2.1.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../kraken2_2.1.3-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -395,12 +431,14 @@ 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/4037099/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4037099/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/2382280 and its subdirectories -I: Current time: Thu Mar 20 20:18:32 -12 2025 -I: pbuilder-time-stamp: 1742545112 +I: removing directory /srv/workspace/pbuilder/4037099 and its subdirectories +I: Current time: Fri Apr 24 04:44:25 +14 2026 +I: pbuilder-time-stamp: 1776955465