Diff of the two buildlogs: -- --- b1/build.log 2025-01-13 16:18:05.084818946 +0000 +++ b2/build.log 2025-01-13 16:24:45.726566469 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Jan 13 04:05:16 -12 2025 -I: pbuilder-time-stamp: 1736784316 +I: Current time: Tue Jan 14 06:20:40 +14 2025 +I: pbuilder-time-stamp: 1736785240 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 use-new-mpb.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/10231/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/27049/tmp/hooks/D01_modify_environment starting +debug: Running on virt64z. +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 Jan 13 16:20 /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/27049/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/27049/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='trixie' - 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]="37" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + 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=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='002d0ae6cc494d34b8be167f783826d2' - 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='10231' - PS1='# ' - PS2='> ' + INVOCATION_ID=94927be5bfc245c88e4a995ea1f88157 + 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=27049 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.5Gd79ZRM/pbuilderrc_t0oW --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.5Gd79ZRM/b1 --logfile b1/build.log seqkit_2.9.0+ds-1.dsc' - SUDO_GID='113' - SUDO_UID='107' - 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.5Gd79ZRM/pbuilderrc_yvv2 --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.5Gd79ZRM/b2 --logfile b2/build.log seqkit_2.9.0+ds-1.dsc' + SUDO_GID=110 + SUDO_UID=103 + 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 virt32a 6.1.0-29-armmp-lpae #1 SMP Debian 6.1.123-1 (2025-01-02) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-29-arm64 #1 SMP Debian 6.1.123-1 (2025-01-02) 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/10231/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/27049/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -326,7 +358,7 @@ Get: 153 http://deb.debian.org/debian trixie/main armhf libhts3t64 armhf 1.20+ds-2 [401 kB] Get: 154 http://deb.debian.org/debian trixie/main armhf libncurses6 armhf 6.5-2+b1 [82.3 kB] Get: 155 http://deb.debian.org/debian trixie/main armhf samtools armhf 1.20-3 [620 kB] -Fetched 125 MB in 4s (31.9 MB/s) +Fetched 125 MB in 11s (11.3 MB/s) Preconfiguring packages ... 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 ... 19567 files and directories currently installed.) @@ -837,8 +869,8 @@ Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Mon Jan 13 16:09:55 UTC 2025. -Universal Time is now: Mon Jan 13 16:09:55 UTC 2025. +Local time is now: Mon Jan 13 16:21:42 UTC 2025. +Universal Time is now: Mon Jan 13 16:21:42 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -967,7 +999,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/seqkit-2.9.0+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_2.9.0+ds-1_source.changes +I: user script /srv/workspace/pbuilder/27049/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/27049/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqkit-2.9.0+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_2.9.0+ds-1_source.changes dpkg-buildpackage: info: source package seqkit dpkg-buildpackage: info: source version 2.9.0+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -985,37 +1021,37 @@ 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 + 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/cpu -internal/abi internal/byteorder -internal/chacha8rand -internal/bytealg +internal/cpu internal/coverage/rtcov +internal/abi internal/godebugs +internal/chacha8rand internal/goexperiment +internal/bytealg internal/goos internal/profilerecord -internal/runtime/atomic internal/runtime/syscall +internal/runtime/atomic internal/stringslite runtime/internal/math runtime/internal/sys -internal/runtime/exithook cmp internal/itoa internal/race math/bits unicode/utf8 +internal/runtime/exithook sync/atomic -math -runtime unicode +math internal/asan internal/msan log/internal +runtime internal/nettrace image/color internal/goversion @@ -1035,246 +1071,246 @@ 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/weak sync internal/reflectlite -slices -internal/weak crypto/subtle +slices maps internal/bisect internal/testlog internal/singleflight +runtime/cgo errors sort strconv -io internal/oserror +io +reflect 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 -math/rand/v2 -internal/concurrent -unique +bufio +vendor/golang.org/x/net/dns/dnsmessage +internal/fmtsort +encoding/binary io/fs internal/poll +golang.org/x/sys/unix internal/filepathlite context -internal/fmtsort -encoding/binary -net/netip +math/rand/v2 os -golang.org/x/sys/unix -runtime/cgo +regexp/syntax +internal/concurrent +unique +net/netip +regexp fmt -github.com/biogo/biogo/alphabet -github.com/biogo/biogo/seq -github.com/biogo/biogo/io/seqio -github.com/biogo/biogo/io/seqio/fasta -github.com/biogo/biogo/seq/linear -github.com/mattn/go-isatty -github.com/mattn/go-colorable -github.com/shenwei356/seqkit/benchmark -log -path/filepath net -regexp/syntax +path/filepath hash crypto crypto/md5 +github.com/biogo/biogo/alphabet +log encoding/hex +github.com/biogo/biogo/seq +github.com/mattn/go-isatty text/tabwriter +github.com/mattn/go-colorable +github.com/biogo/biogo/io/seqio +github.com/biogo/biogo/seq/linear github.com/biogo/biogo/align -regexp +github.com/biogo/biogo/io/seqio/fasta compress/flate +github.com/shenwei356/seqkit/benchmark hash/crc32 +compress/gzip container/heap net/url -compress/gzip -github.com/biogo/hts/bgzf golang.org/x/term -github.com/biogo/hts/bgzf/index +github.com/biogo/hts/bgzf golang.org/x/crypto/ssh/terminal -github.com/biogo/hts/internal golang.org/x/image/math/fixed image +github.com/biogo/hts/bgzf/index +go/token +github.com/biogo/hts/internal github.com/biogo/hts/sam +go/scanner image/internal/imageutil +go/ast image/draw -github.com/biogo/hts/bam github.com/golang/freetype/raster +github.com/biogo/hts/bam golang.org/x/image/font -go/token github.com/golang/freetype/truetype -go/scanner -go/ast go/build/constraint go/doc/comment internal/lazyregexp go/internal/typeparams -go/doc go/parser +go/doc internal/buildcfg os/exec io/ioutil internal/goroot +golang.org/x/image/draw go/build -log/syslog gonum.org/v1/plot/vg/fonts -github.com/op/go-logging -golang.org/x/image/draw golang.org/x/image/font/basicfont +log/syslog gonum.org/v1/plot/vg image/jpeg +github.com/op/go-logging gonum.org/v1/plot/vg/vgeps hash/adler32 compress/zlib golang.org/x/image/ccitt -image/png golang.org/x/image/tiff/lzw -golang.org/x/image/tiff +image/png crypto/rc4 crypto/cipher +golang.org/x/image/tiff internal/saferio encoding/gob crypto/internal/boring +github.com/fogleman/gg crypto/sha1 encoding/base64 -github.com/fogleman/gg +encoding/xml encoding/json gonum.org/v1/plot/vg/vgimg -encoding/xml compress/lzw image/gif math/rand html +github.com/ajstarks/svgo runtime/debug -gonum.org/v1/plot/palette github.com/jung-kurt/gofpdf -github.com/ajstarks/svgo +gonum.org/v1/plot/palette gonum.org/v1/plot/tools/bezier -github.com/cespare/xxhash gonum.org/v1/plot/vg/vgsvg +github.com/cespare/xxhash math/big github.com/dsnet/compress/internal/errors +github.com/fsnotify/fsnotify/internal github.com/dsnet/compress github.com/dsnet/compress/internal/prefix -github.com/dsnet/compress/bzip2 -github.com/fsnotify/fsnotify/internal github.com/fsnotify/fsnotify -github.com/cznic/sortutil -github.com/dustin/go-humanize +github.com/dsnet/compress/bzip2 github.com/iafan/cwalk crypto/internal/randutil -crypto/rand github.com/klauspost/compress/fse github.com/klauspost/compress/internal/snapref -github.com/klauspost/compress/flate github.com/klauspost/compress/huff0 +github.com/klauspost/compress/flate +github.com/cznic/sortutil +github.com/dustin/go-humanize +crypto/rand github.com/klauspost/compress/zstd -gonum.org/v1/plot/vg/vgpdf -gonum.org/v1/plot/vg/draw -github.com/klauspost/pgzip -gonum.org/v1/plot github.com/logrusorgru/aurora -gonum.org/v1/plot/plotter +github.com/klauspost/pgzip github.com/mitchellh/go-homedir github.com/pkg/errors crypto/sha256 +gonum.org/v1/plot/vg/vgpdf github.com/ulikunitz/xz/internal/xlog -github.com/ulikunitz/xz/lzma -gonum.org/v1/plot/plotutil hash/crc64 crypto/aes -github.com/bsipos/thist +gonum.org/v1/plot/vg/draw +github.com/ulikunitz/xz/lzma crypto/des crypto/internal/edwards25519/field +gonum.org/v1/plot crypto/internal/nistec/fiat -crypto/internal/bigmod +gonum.org/v1/plot/plotter github.com/ulikunitz/xz +crypto/internal/bigmod crypto/internal/boring/bbig crypto/sha512 encoding/asn1 crypto/internal/edwards25519 +gonum.org/v1/plot/plotutil crypto/ed25519 -vendor/golang.org/x/crypto/cryptobyte crypto/hmac +github.com/bsipos/thist +vendor/golang.org/x/crypto/cryptobyte vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 -vendor/golang.org/x/crypto/chacha20poly1305 vendor/golang.org/x/crypto/hkdf +vendor/golang.org/x/crypto/chacha20poly1305 vendor/golang.org/x/sys/cpu -vendor/golang.org/x/crypto/sha3 crypto/rsa -crypto/internal/mlkem768 +crypto/internal/nistec crypto/dsa +vendor/golang.org/x/crypto/sha3 crypto/x509/pkix encoding/pem vendor/golang.org/x/text/transform +crypto/internal/mlkem768 vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm -crypto/internal/nistec -vendor/golang.org/x/text/secure/bidirule net/textproto crypto/ecdh crypto/elliptic crypto/internal/hpke -vendor/golang.org/x/net/idna +vendor/golang.org/x/text/secure/bidirule vendor/golang.org/x/net/http2/hpack -crypto/ecdsa mime -crypto/x509 -vendor/golang.org/x/net/http/httpguts -vendor/golang.org/x/net/http/httpproxy +crypto/ecdsa mime/quotedprintable net/http/internal mime/multipart +crypto/x509 net/http/internal/ascii +vendor/golang.org/x/net/idna os/user github.com/twotwotwo/sorts github.com/twotwotwo/sorts/sortutil github.com/shenwei356/util/byteutil +vendor/golang.org/x/net/http/httpguts +vendor/golang.org/x/net/http/httpproxy github.com/shenwei356/bio/seq -crypto/tls github.com/edsrzf/mmap-go github.com/shenwei356/bio/seqio/fai github.com/shenwei356/bio/util +crypto/tls index/suffixarray github.com/mattn/go-runewidth -github.com/shenwei356/bwt github.com/shenwei356/stable -github.com/shenwei356/bwt/fmi +github.com/shenwei356/bwt github.com/shenwei356/util/pathutil +github.com/shenwei356/bwt/fmi github.com/shenwei356/util/randutil github.com/shenwei356/natsort gopkg.in/yaml.v2 github.com/shenwei356/util/stringutil encoding/csv flag +text/template/parse github.com/spf13/pflag +text/template github.com/smallfish/simpleyaml -text/template/parse github.com/acarl005/stripansi -net/http/httptrace github.com/vbauerster/mpb/cwriter -net/http -text/template github.com/vbauerster/mpb/decor -github.com/vbauerster/mpb -github.com/spf13/cobra os/signal +github.com/spf13/cobra +github.com/vbauerster/mpb +net/http/httptrace +net/http github.com/shenwei356/xopen github.com/shenwei356/breader github.com/shenwei356/bio/seqio/fastx @@ -1282,7 +1318,7 @@ 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] @@ -1317,15 +1353,15 @@ 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/lib/seqkit/benchmark 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_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_2.9.0+ds-1_armhf.deb'. @@ -1337,12 +1373,14 @@ 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/27049/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/27049/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/10231 and its subdirectories -I: Current time: Mon Jan 13 04:17:59 -12 2025 -I: pbuilder-time-stamp: 1736785079 +I: removing directory /srv/workspace/pbuilder/27049 and its subdirectories +I: Current time: Tue Jan 14 06:24:42 +14 2025 +I: pbuilder-time-stamp: 1736785482