Diff of the two buildlogs: -- --- b1/build.log 2024-07-27 04:22:44.009806041 +0000 +++ b2/build.log 2024-07-27 04:45:44.635248352 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Jul 26 15:53:19 -12 2024 -I: pbuilder-time-stamp: 1722052399 +I: Current time: Sat Jul 27 18:22:57 +14 2024 +I: pbuilder-time-stamp: 1722054177 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying malloc I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/21734/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/20304/tmp/hooks/D01_modify_environment starting +debug: Running on ff64a. +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 Jul 27 04:23 /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/20304/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/20304/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='armhf' + 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]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='c4563991327b49da926b881a04b73c55' - 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='21734' - PS1='# ' - PS2='> ' + INVOCATION_ID=d85c01ca44c64e9aae498c751a421cdd + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=20304 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.7IkbiCfZ/pbuilderrc_xgJT --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IkbiCfZ/b1 --logfile b1/build.log libssw_1.1-15.dsc' - SUDO_GID='116' - SUDO_UID='112' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.7IkbiCfZ/pbuilderrc_BC6s --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7IkbiCfZ/b2 --logfile b2/build.log libssw_1.1-15.dsc' + SUDO_GID=114 + SUDO_UID=109 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux cbxi4b 6.1.0-23-armmp #1 SMP Debian 6.1.99-1 (2024-07-15) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-23-arm64 #1 SMP Debian 6.1.99-1 (2024-07-15) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/21734/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/20304/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -248,7 +280,7 @@ Get: 119 http://deb.debian.org/debian unstable/main armhf libsimde-dev all 0.8.2-1 [465 kB] Get: 120 http://deb.debian.org/debian unstable/main armhf maven-repo-helper all 1.11 [142 kB] Get: 121 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1 [904 kB] -Fetched 142 MB in 12s (11.6 MB/s) +Fetched 142 MB in 6s (24.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpipeline1:armhf. (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 ... 19508 files and directories currently installed.) @@ -658,8 +690,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Jul 27 03:55:35 UTC 2024. -Universal Time is now: Sat Jul 27 03:55:35 UTC 2024. +Local time is now: Sat Jul 27 04:25:49 UTC 2024. +Universal Time is now: Sat Jul 27 04:25:49 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -947,7 +979,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libssw-1.1/ && 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 > ../libssw_1.1-15_source.changes +I: user script /srv/workspace/pbuilder/20304/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/20304/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libssw-1.1/ && 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 > ../libssw_1.1-15_source.changes dpkg-buildpackage: info: source package libssw dpkg-buildpackage: info: source version 1.1-15 dpkg-buildpackage: info: source distribution unstable @@ -960,7 +996,7 @@ make[1]: Entering directory '/build/reproducible-path/libssw-1.1' rm -f debian/libssw*install debian/libssw*links debian/ssw-align.1 dh_auto_clean --sourcedirectory src - cd src && make -j3 clean + cd src && make -j6 clean make[2]: Entering directory '/build/reproducible-path/libssw-1.1/src' rm -f ssw.o ssw_cpp.o ssw-align libssw.so.0 example_c example_cpp libsswjni.so *.jar ssw/Aligner.class ssw/Alignment.class *~ libssw.a make[2]: Leaving directory '/build/reproducible-path/libssw-1.1/src' @@ -975,7 +1011,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/libssw-1.1' dh_auto_build --sourcedirectory src -- default java - cd src && make -j3 "INSTALL=install --strip-program=true" default java + cd src && make -j6 "INSTALL=install --strip-program=true" default java make[2]: Entering directory '/build/reproducible-path/libssw-1.1/src' g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -shared -rdynamic -Wl,-soname,libssw.so.0 -o libssw.so.0 ssw.c ssw.h ssw_cpp.h ssw_cpp.cpp -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc -c -o ssw.o ssw.c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 @@ -983,13 +1019,13 @@ javac ssw/Aligner.java javac ssw/Alignment.java cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I"/include" -I"/include/linux" -I/usr/lib/jvm/default-java/include/ -I/usr/lib/jvm/default-java/include/linux -fPIC -shared -rdynamic -o libsswjni.so sswjni.c ssw.c -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -ar rcs libssw.a ssw.o ssw_cpp.o -cc -o example_c ssw.o example.c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -g++ -o example_cpp example.cpp ssw.o ssw_cpp.o -g -O2 -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now jar cvf ssw.jar ssw/Aligner.class ssw/Alignment.class added manifest adding: ssw/Aligner.class(in = 2486) (out= 1525)(deflated 38%) adding: ssw/Alignment.class(in = 1029) (out= 602)(deflated 41%) +ar rcs libssw.a ssw.o ssw_cpp.o +cc -o example_c ssw.o example.c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now +g++ -o example_cpp example.cpp ssw.o ssw_cpp.o -g -O2 -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libssw-1.1=. -flto=auto -ffat-lto-objects -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -o ssw-align main.c kseq.h -L. -lssw -lm -lz -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/libssw-1.1/src' make[1]: Leaving directory '/build/reproducible-path/libssw-1.1' @@ -1386,7 +1422,7 @@ Query: 731 GAGATGCTGATGTATAT-ACT-T-ACA--TATT------TT-ACAGTGTATTCAAATAAA 778 Target: 9474 GAAAATAATTGCATATGATACAGT--GTTTGTGCCAAAATGTATTCATGGCTTTAAAAAC 9531 - ||**|| |||*||||*||*|*| | *|||||**|*||*| CPU time: 1132.107300 seconds + ||**|| |||*||||*||*|*| | *|||||**|*||*| CPU time: 922.951294 seconds || ||*|*||||*|| Query: 779 GAGTAT-ATTACATAAGACATA-TCCTTTTGTAACCAACT---TT--TGTCATTAACAA- 830 @@ -1452,7 +1488,7 @@ dh_makeshlibs -a dpkg-gensymbols: warning: debian/libssw0/DEBIAN/symbols doesn't match completely debian/libssw0.symbols --- debian/libssw0.symbols (libssw0_1.1-15_armhf) -+++ dpkg-gensymbolsBG63y5 2024-07-26 16:22:01.630065494 -1200 ++++ dpkg-gensymbolsF3c6Ej 2024-07-27 18:45:06.604242755 +1400 @@ -21,7 +21,7 @@ _ZNK20StripedSmithWaterman7Aligner13TranslateBaseEPKcRKiPa@Base 1.1 _ZNK20StripedSmithWaterman7Aligner5AlignEPKcRKNS_6FilterEPNS_9AlignmentE@Base 1.1 @@ -1464,14 +1500,14 @@ mark_mismatch@Base 1.1 dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect +dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect +dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged -dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged -dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged @@ -1480,12 +1516,12 @@ dh_md5sums dh_builddeb dpkg-deb: building package 'libssw0' in '../libssw0_1.1-15_armhf.deb'. +dpkg-deb: building package 'libssw-java-dbgsym' in '../libssw-java-dbgsym_1.1-15_armhf.deb'. dpkg-deb: building package 'ssw-align-dbgsym' in '../ssw-align-dbgsym_1.1-15_armhf.deb'. -dpkg-deb: building package 'libssw-java' in '../libssw-java_1.1-15_armhf.deb'. +dpkg-deb: building package 'libssw-dev' in '../libssw-dev_1.1-15_armhf.deb'. dpkg-deb: building package 'libssw0-dbgsym' in '../libssw0-dbgsym_1.1-15_armhf.deb'. -dpkg-deb: building package 'libssw-java-dbgsym' in '../libssw-java-dbgsym_1.1-15_armhf.deb'. dpkg-deb: building package 'ssw-align' in '../ssw-align_1.1-15_armhf.deb'. -dpkg-deb: building package 'libssw-dev' in '../libssw-dev_1.1-15_armhf.deb'. +dpkg-deb: building package 'libssw-java' in '../libssw-java_1.1-15_armhf.deb'. dpkg-genbuildinfo --build=binary -O../libssw_1.1-15_armhf.buildinfo dpkg-genchanges --build=binary -O../libssw_1.1-15_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1493,12 +1529,14 @@ 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/20304/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/20304/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/21734 and its subdirectories -I: Current time: Fri Jul 26 16:22:39 -12 2024 -I: pbuilder-time-stamp: 1722054159 +I: removing directory /srv/workspace/pbuilder/20304 and its subdirectories +I: Current time: Sat Jul 27 18:45:35 +14 2024 +I: pbuilder-time-stamp: 1722055535