Diff of the two buildlogs: -- --- b1/build.log 2024-12-01 00:24:31.778346945 +0000 +++ b2/build.log 2024-12-01 00:37:23.323392888 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Nov 30 12:17:18 -12 2024 -I: pbuilder-time-stamp: 1733012238 +I: Current time: Sun Dec 1 14:27:20 +14 2024 +I: pbuilder-time-stamp: 1733012840 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying use-new-mpb.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4366/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/6133/tmp/hooks/D01_modify_environment starting +debug: Running on virt64b. +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 Dec 1 00:27 /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/6133/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/6133/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]="32" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.32(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=4 ' + 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='a3e09e75fdf944499f0b3aba145cc780' - 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='4366' - PS1='# ' - PS2='> ' + INVOCATION_ID=0314de8c60b34675b1753a56c9672e47 + 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=6133 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.4duNqnuh/pbuilderrc_YQNZ --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.4duNqnuh/b1 --logfile b1/build.log seqkit_2.8.2+ds-2.dsc' - SUDO_GID='112' - SUDO_UID='106' - 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.4duNqnuh/pbuilderrc_OqWV --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.4duNqnuh/b2 --logfile b2/build.log seqkit_2.8.2+ds-2.dsc' + SUDO_GID=113 + SUDO_UID=107 + 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 virt32b 6.1.0-28-armmp-lpae #1 SMP Debian 6.1.119-1 (2024-11-22) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4366/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/6133/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -324,7 +356,7 @@ Get: 147 http://deb.debian.org/debian unstable/main armhf libhts3t64 armhf 1.20+ds-2 [401 kB] Get: 148 http://deb.debian.org/debian unstable/main armhf libncurses6 armhf 6.5-2+b1 [82.3 kB] Get: 149 http://deb.debian.org/debian unstable/main armhf samtools armhf 1.20-3 [620 kB] -Fetched 123 MB in 6s (20.8 MB/s) +Fetched 123 MB in 5s (24.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package tzdata. (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 ... 19684 files and directories currently installed.) @@ -818,8 +850,8 @@ Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Dec 1 00:19:39 UTC 2024. -Universal Time is now: Sun Dec 1 00:19:39 UTC 2024. +Local time is now: Sun Dec 1 00:30:32 UTC 2024. +Universal Time is now: Sun Dec 1 00:30:32 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -941,7 +973,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/seqkit-2.8.2+ds/ && 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 > ../seqkit_2.8.2+ds-2_source.changes +I: user script /srv/workspace/pbuilder/6133/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/6133/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqkit-2.8.2+ds/ && 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 > ../seqkit_2.8.2+ds-2_source.changes dpkg-buildpackage: info: source package seqkit dpkg-buildpackage: info: source version 2.8.2+ds-2 dpkg-buildpackage: info: source distribution unstable @@ -959,39 +995,39 @@ dh_autoreconf -O--buildsystem=golang -O--builddirectory=build dh_auto_configure -O--buildsystem=golang -O--builddirectory=build dh_auto_build -O--buildsystem=golang -O--builddirectory=build - cd build && go install -trimpath -v -p 3 github.com/shenwei356/seqkit/benchmark github.com/shenwei356/seqkit/seqkit github.com/shenwei356/seqkit/seqkit/cmd -internal/byteorder + cd build && go install -trimpath -v -p 4 github.com/shenwei356/seqkit/benchmark github.com/shenwei356/seqkit/seqkit github.com/shenwei356/seqkit/seqkit/cmd internal/goarch internal/unsafeheader +internal/byteorder internal/cpu +internal/coverage/rtcov internal/abi internal/chacha8rand -internal/bytealg -internal/coverage/rtcov internal/godebugs internal/goexperiment internal/goos internal/profilerecord -internal/runtime/atomic internal/runtime/syscall -internal/stringslite +internal/bytealg +internal/runtime/atomic runtime/internal/math -internal/runtime/exithook runtime/internal/sys +internal/stringslite cmp internal/itoa +internal/runtime/exithook internal/race math/bits unicode/utf8 -math sync/atomic -runtime unicode +math internal/asan internal/msan log/internal internal/nettrace image/color +runtime internal/goversion internal/platform golang.org/x/image/math/f64 @@ -1009,246 +1045,246 @@ vendor/golang.org/x/crypto/cryptobyte/asn1 vendor/golang.org/x/crypto/internal/alias github.com/shenwei356/util/math -github.com/rivo/uniseg github.com/VividCortex/ewma +github.com/rivo/uniseg github.com/vbauerster/mpb/internal -iter internal/reflectlite -sync -slices internal/weak +iter +sync crypto/subtle +slices maps internal/bisect internal/testlog internal/singleflight +runtime/cgo errors sort -internal/godebug -strconv io internal/oserror +strconv path +internal/godebug syscall strings reflect github.com/biogo/biogo/feat bytes bufio -vendor/golang.org/x/net/dns/dnsmessage time internal/syscall/unix internal/syscall/execenv +vendor/golang.org/x/net/dns/dnsmessage math/rand/v2 +regexp/syntax internal/concurrent unique net/netip io/fs -internal/filepathlite internal/poll -internal/fmtsort -encoding/binary +internal/filepathlite context +internal/fmtsort os +encoding/binary +regexp +hash +crypto +crypto/md5 +hash/crc32 +container/heap +image golang.org/x/sys/unix -runtime/cgo +go/build/constraint +hash/adler32 +crypto/rc4 +crypto/cipher +image/internal/imageutil +image/draw fmt +net +path/filepath +internal/lazyregexp +os/exec github.com/biogo/biogo/alphabet +log github.com/biogo/biogo/seq +encoding/hex +text/tabwriter github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/seq/linear +github.com/biogo/biogo/align github.com/shenwei356/seqkit/benchmark github.com/mattn/go-isatty github.com/mattn/go-colorable -log -path/filepath -regexp/syntax -hash -crypto -crypto/md5 -encoding/hex -text/tabwriter -github.com/biogo/biogo/align -regexp -net compress/flate -hash/crc32 -container/heap net/url compress/gzip golang.org/x/term github.com/biogo/hts/bgzf -golang.org/x/crypto/ssh/terminal golang.org/x/image/math/fixed +golang.org/x/crypto/ssh/terminal +go/token +github.com/golang/freetype/raster github.com/biogo/hts/bgzf/index github.com/biogo/hts/internal -image -github.com/biogo/hts/sam -image/internal/imageutil -image/draw -github.com/biogo/hts/bam -github.com/golang/freetype/raster golang.org/x/image/font -go/token -github.com/golang/freetype/truetype go/scanner +github.com/golang/freetype/truetype +github.com/biogo/hts/sam go/ast -go/build/constraint go/doc/comment -internal/lazyregexp +github.com/biogo/hts/bam go/internal/typeparams -go/doc go/parser +go/doc internal/buildcfg -os/exec -io/ioutil internal/goroot -go/build +io/ioutil gonum.org/v1/plot/vg/fonts -log/syslog golang.org/x/image/draw -github.com/op/go-logging -gonum.org/v1/plot/vg +go/build golang.org/x/image/font/basicfont -gonum.org/v1/plot/vg/vgeps image/jpeg -hash/adler32 +log/syslog +gonum.org/v1/plot/vg +github.com/op/go-logging +gonum.org/v1/plot/vg/vgeps compress/zlib image/png golang.org/x/image/ccitt golang.org/x/image/tiff/lzw +crypto/internal/boring golang.org/x/image/tiff -crypto/rc4 -crypto/cipher +crypto/sha1 internal/saferio encoding/gob -crypto/internal/boring -crypto/sha1 -github.com/fogleman/gg encoding/base64 +github.com/fogleman/gg +encoding/xml encoding/json gonum.org/v1/plot/vg/vgimg -encoding/xml compress/lzw image/gif math/rand +github.com/ajstarks/svgo html runtime/debug +gonum.org/v1/plot/vg/vgsvg gonum.org/v1/plot/palette +github.com/jung-kurt/gofpdf gonum.org/v1/plot/tools/bezier github.com/cespare/xxhash math/big -github.com/ajstarks/svgo -github.com/jung-kurt/gofpdf -gonum.org/v1/plot/vg/vgsvg github.com/dsnet/compress/internal/errors github.com/dsnet/compress github.com/dsnet/compress/internal/prefix -github.com/dsnet/compress/bzip2 -github.com/cznic/sortutil -github.com/dustin/go-humanize github.com/fsnotify/fsnotify/internal github.com/fsnotify/fsnotify github.com/iafan/cwalk +github.com/dsnet/compress/bzip2 crypto/internal/randutil -crypto/rand github.com/klauspost/compress/fse github.com/klauspost/compress/internal/snapref github.com/klauspost/compress/flate -gonum.org/v1/plot/vg/vgpdf github.com/klauspost/compress/huff0 -gonum.org/v1/plot/vg/draw -gonum.org/v1/plot +github.com/cznic/sortutil +github.com/dustin/go-humanize +crypto/rand +github.com/logrusorgru/aurora github.com/klauspost/compress/zstd -gonum.org/v1/plot/plotter github.com/klauspost/pgzip -github.com/logrusorgru/aurora -gonum.org/v1/plot/plotutil -github.com/bsipos/thist github.com/mitchellh/go-homedir github.com/pkg/errors crypto/sha256 github.com/ulikunitz/xz/internal/xlog +github.com/ulikunitz/xz/lzma hash/crc64 +gonum.org/v1/plot/vg/vgpdf crypto/aes crypto/des -github.com/ulikunitz/xz/lzma +gonum.org/v1/plot/vg/draw crypto/internal/edwards25519/field crypto/internal/nistec/fiat +gonum.org/v1/plot +github.com/ulikunitz/xz +gonum.org/v1/plot/plotter crypto/internal/bigmod crypto/internal/boring/bbig crypto/sha512 encoding/asn1 -github.com/ulikunitz/xz -vendor/golang.org/x/crypto/cryptobyte crypto/internal/edwards25519 -crypto/hmac crypto/ed25519 +vendor/golang.org/x/crypto/cryptobyte +crypto/hmac +gonum.org/v1/plot/plotutil vendor/golang.org/x/crypto/chacha20 +github.com/bsipos/thist vendor/golang.org/x/crypto/internal/poly1305 +vendor/golang.org/x/crypto/chacha20poly1305 +crypto/internal/nistec vendor/golang.org/x/crypto/hkdf vendor/golang.org/x/sys/cpu -vendor/golang.org/x/crypto/chacha20poly1305 crypto/rsa -vendor/golang.org/x/crypto/sha3 -crypto/internal/nistec -crypto/internal/mlkem768 crypto/dsa +vendor/golang.org/x/crypto/sha3 crypto/x509/pkix encoding/pem vendor/golang.org/x/text/transform vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm +crypto/internal/mlkem768 crypto/ecdh crypto/elliptic crypto/internal/hpke vendor/golang.org/x/text/secure/bidirule -crypto/ecdsa net/textproto vendor/golang.org/x/net/http2/hpack -vendor/golang.org/x/net/idna -crypto/x509 +crypto/ecdsa mime -vendor/golang.org/x/net/http/httpguts -vendor/golang.org/x/net/http/httpproxy mime/quotedprintable -mime/multipart net/http/internal net/http/internal/ascii os/user +crypto/x509 +mime/multipart +vendor/golang.org/x/net/idna github.com/twotwotwo/sorts github.com/twotwotwo/sorts/sortutil -crypto/tls github.com/shenwei356/util/byteutil +vendor/golang.org/x/net/http/httpguts +vendor/golang.org/x/net/http/httpproxy github.com/shenwei356/bio/seq github.com/edsrzf/mmap-go github.com/shenwei356/bio/seqio/fai github.com/shenwei356/bio/util index/suffixarray +crypto/tls +github.com/mattn/go-runewidth +github.com/shenwei356/stable github.com/shenwei356/bwt github.com/shenwei356/bwt/fmi -github.com/mattn/go-runewidth github.com/shenwei356/util/pathutil github.com/shenwei356/util/randutil -github.com/shenwei356/stable github.com/shenwei356/natsort -github.com/shenwei356/util/stringutil gopkg.in/yaml.v2 +github.com/shenwei356/util/stringutil encoding/csv flag +text/template/parse github.com/spf13/pflag -net/http/httptrace -net/http +text/template github.com/smallfish/simpleyaml -text/template/parse github.com/acarl005/stripansi github.com/vbauerster/mpb/cwriter github.com/vbauerster/mpb/decor -text/template -github.com/vbauerster/mpb -github.com/spf13/cobra os/signal +github.com/spf13/cobra +net/http/httptrace +github.com/vbauerster/mpb +net/http github.com/shenwei356/xopen github.com/shenwei356/breader github.com/shenwei356/bio/seqio/fastx @@ -1256,7 +1292,7 @@ github.com/shenwei356/seqkit/seqkit/cmd github.com/shenwei356/seqkit/seqkit dh_auto_test -O--buildsystem=golang -O--builddirectory=build - cd build && go test -vet=off -v -p 3 github.com/shenwei356/seqkit/benchmark github.com/shenwei356/seqkit/seqkit github.com/shenwei356/seqkit/seqkit/cmd + cd build && go test -vet=off -v -p 4 github.com/shenwei356/seqkit/benchmark github.com/shenwei356/seqkit/seqkit github.com/shenwei356/seqkit/seqkit/cmd ? github.com/shenwei356/seqkit/benchmark [no test files] ? github.com/shenwei356/seqkit/seqkit [no test files] ? github.com/shenwei356/seqkit/seqkit/cmd [no test files] @@ -1291,15 +1327,15 @@ dh_fixperms -O--buildsystem=golang -O--builddirectory=build dh_missing -O--buildsystem=golang -O--builddirectory=build dh_strip -a -O--buildsystem=golang -O--builddirectory=build -dh_strip: warning: Could not find the BuildID in debian/seqkit/usr/bin/seqkit dh_strip: warning: Could not find the BuildID in debian/seqkit/usr/lib/seqkit/benchmark +dh_strip: warning: Could not find the BuildID in debian/seqkit/usr/bin/seqkit dh_makeshlibs -a -O--buildsystem=golang -O--builddirectory=build dh_shlibdeps -a -O--buildsystem=golang -O--builddirectory=build dh_installdeb -O--buildsystem=golang -O--builddirectory=build dh_golang -O--buildsystem=golang -O--builddirectory=build dh_gencontrol -O--buildsystem=golang -O--builddirectory=build -dpkg-gencontrol: warning: package seqkit: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: Depends field of package seqkit-examples: substitution variable ${shlibs:Depends} used, but is not defined +dpkg-gencontrol: warning: package seqkit: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang -O--builddirectory=build dh_builddeb -O--buildsystem=golang -O--builddirectory=build dpkg-deb: building package 'seqkit' in '../seqkit_2.8.2+ds-2_armhf.deb'. @@ -1311,12 +1347,14 @@ 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/6133/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/6133/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/4366 and its subdirectories -I: Current time: Sat Nov 30 12:24:27 -12 2024 -I: pbuilder-time-stamp: 1733012667 +I: removing directory /srv/workspace/pbuilder/6133 and its subdirectories +I: Current time: Sun Dec 1 14:37:19 +14 2024 +I: pbuilder-time-stamp: 1733013439