Diff of the two buildlogs: -- --- b1/build.log 2025-01-09 10:11:55.601094777 +0000 +++ b2/build.log 2025-01-09 10:17:47.625042501 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Jan 8 22:07:11 -12 2025 -I: pbuilder-time-stamp: 1736417231 +I: Current time: Fri Jan 10 00:12:11 +14 2025 +I: pbuilder-time-stamp: 1736417531 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -22,52 +22,84 @@ dpkg-source: info: unpacking golang-github-biogo-biogo_1.0.4-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/31129/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/D01_modify_environment starting +debug: Running on virt32z. +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 9 10:12 /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/15879/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/15879/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]="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=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='d70bc8b8a0d446adac1e80f03f519d70' - 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='31129' - PS1='# ' - PS2='> ' + INVOCATION_ID=ebbd58ca8890460386d1845f0e553c87 + 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=15879 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.Gp8QQLlG/pbuilderrc_lvP2 --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.Gp8QQLlG/b1 --logfile b1/build.log golang-github-biogo-biogo_1.0.4-1.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.Gp8QQLlG/pbuilderrc_7Kc0 --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.Gp8QQLlG/b2 --logfile b2/build.log golang-github-biogo-biogo_1.0.4-1.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 virt64b 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-armmp-lpae #1 SMP Debian 6.1.119-1 (2024-11-22) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/31129/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -139,7 +171,7 @@ Get: 22 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libunistring5 armhf 1.3-1 [444 kB] -Get: 25 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] +Get: 25 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-6 [9086 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-4 [1489 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] @@ -169,7 +201,7 @@ Get: 52 http://deb.debian.org/debian unstable/main armhf golang-github-biogo-store-dev all 0.0~git20200525.8c94ae1-2 [34.3 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf golang-github-biogo-hts-dev all 1.4.5+dfsg1-1 [319 kB] -Fetched 72.2 MB in 5s (16.0 MB/s) +Fetched 72.2 MB in 29s (2523 kB/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 ... 19561 files and directories currently installed.) @@ -245,8 +277,8 @@ Preparing to unpack .../23-libunistring5_1.3-1_armhf.deb ... Unpacking libunistring5:armhf (1.3-1) ... Selecting previously unselected package libicu72:armhf. -Preparing to unpack .../24-libicu72_72.1-5+b1_armhf.deb ... -Unpacking libicu72:armhf (72.1-5+b1) ... +Preparing to unpack .../24-libicu72_72.1-6_armhf.deb ... +Unpacking libicu72:armhf (72.1-6) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../25-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_armhf.deb ... Unpacking libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... @@ -335,7 +367,7 @@ Preparing to unpack .../53-golang-github-biogo-hts-dev_1.4.5+dfsg1-1_all.deb ... Unpacking golang-github-biogo-hts-dev (1.4.5+dfsg1-1) ... Setting up libpipeline1:armhf (1.5.8-1) ... -Setting up libicu72:armhf (72.1-5+b1) ... +Setting up libicu72:armhf (72.1-6) ... Setting up bsdextrautils (2.40.2-14) ... Setting up golang-github-creack-pty-dev (1.1.21-1) ... Setting up libmagic-mgc (1:5.45-3+b1) ... @@ -400,7 +432,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/golang-github-biogo-biogo-1.0.4/ && 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 > ../golang-github-biogo-biogo_1.0.4-1_source.changes +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/golang-github-biogo-biogo-1.0.4/ && 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 > ../golang-github-biogo-biogo_1.0.4-1_source.changes dpkg-buildpackage: info: source package golang-github-biogo-biogo dpkg-buildpackage: info: source version 1.0.4-1 dpkg-buildpackage: info: source distribution unstable @@ -418,17 +454,17 @@ dh_autoreconf -O--builddirectory=_build -O--buildsystem=golang dh_auto_configure -O--builddirectory=_build -O--buildsystem=golang dh_auto_build -O--builddirectory=_build -O--buildsystem=golang - cd _build && go install -trimpath -v -p 3 github.com/biogo/biogo github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 github.com/biogo/biogo/feat/genome/human/hg19 github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass github.com/biogo/biogo/pwm github.com/biogo/biogo/seq github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util -github.com/biogo/biogo + cd _build && go install -trimpath -v -p 4 github.com/biogo/biogo github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 github.com/biogo/biogo/feat/genome/human/hg19 github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass github.com/biogo/biogo/pwm github.com/biogo/biogo/seq github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util internal/goarch internal/unsafeheader +github.com/biogo/biogo internal/cpu internal/byteorder +internal/coverage/rtcov internal/abi internal/chacha8rand -internal/bytealg -internal/coverage/rtcov internal/godebugs +internal/bytealg internal/goexperiment internal/goos internal/profilerecord @@ -437,20 +473,20 @@ internal/stringslite runtime/internal/math runtime/internal/sys -internal/runtime/exithook cmp internal/itoa internal/race +internal/runtime/exithook math/bits unicode/utf8 sync/atomic -math -runtime unicode +math internal/asan internal/msan encoding github.com/biogo/store/llrb +runtime log/internal image/color iter @@ -459,79 +495,79 @@ slices internal/bisect internal/testlog -sort errors +sort internal/godebug strconv io internal/oserror path -syscall strings -reflect -github.com/biogo/biogo/feat +syscall hash container/heap bytes -bufio -time -internal/syscall/unix -internal/syscall/execenv +reflect +github.com/biogo/biogo/feat internal/saferio github.com/biogo/biogo/io/featio +bufio math/rand github.com/biogo/store/interval hash/adler32 github.com/biogo/biogo/feat/gene +internal/syscall/unix +internal/syscall/execenv +time io/fs -internal/fmtsort internal/poll -internal/filepathlite encoding/binary +internal/fmtsort +internal/filepathlite os -io/ioutil fmt -text/tabwriter +io/ioutil github.com/biogo/biogo/alphabet -github.com/biogo/biogo/util encoding/gob +text/tabwriter +github.com/biogo/biogo/util encoding/csv +github.com/biogo/graph +log github.com/biogo/biogo/seq -github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align +github.com/biogo/biogo/align/matrix github.com/biogo/biogo/seq/linear +github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/fasta -github.com/biogo/biogo/index/kmerindex -github.com/biogo/biogo/morass -github.com/biogo/biogo/io/featio/gff -github.com/biogo/graph -github.com/biogo/biogo/align/pals/filter -log compress/flate -github.com/biogo/biogo/align/pals/dp +github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/concurrent -github.com/biogo/biogo/align/pals github.com/biogo/biogo/errors github.com/biogo/biogo/feat/genome +github.com/biogo/biogo/morass github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 compress/zlib -github.com/biogo/biogo/complexity github.com/biogo/biogo/feat/genome/human/hg19 +github.com/biogo/biogo/complexity +github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/io/featio/bed +github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/seq/sequtils -github.com/biogo/hts/fai +github.com/biogo/biogo/align/pals github.com/biogo/biogo/seq/multi +github.com/biogo/hts/fai github.com/biogo/biogo/io/seqio/fai +github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/pwm -github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/quality dh_auto_test -O--builddirectory=_build -O--buildsystem=golang - cd _build && go test -vet=off -v -p 3 github.com/biogo/biogo github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 github.com/biogo/biogo/feat/genome/human/hg19 github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass github.com/biogo/biogo/pwm github.com/biogo/biogo/seq github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util + cd _build && go test -vet=off -v -p 4 github.com/biogo/biogo github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 github.com/biogo/biogo/feat/genome/human/hg19 github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass github.com/biogo/biogo/pwm github.com/biogo/biogo/seq github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util ? github.com/biogo/biogo [no test files] ? github.com/biogo/biogo/align/matrix [no test files] === RUN Test @@ -552,39 +588,39 @@ === RUN ExampleSWAffine_Align --- PASS: ExampleSWAffine_Align (0.00s) PASS -ok github.com/biogo/biogo/align 0.053s +ok github.com/biogo/biogo/align 0.091s === RUN Test OK: 5 passed ---- PASS: Test (0.07s) +--- PASS: Test (0.04s) PASS -ok github.com/biogo/biogo/align/pals 0.108s +ok github.com/biogo/biogo/align/pals 0.079s === RUN Test OK: 1 passed ---- PASS: Test (0.02s) +--- PASS: Test (0.03s) PASS -ok github.com/biogo/biogo/align/pals/dp 0.037s +ok github.com/biogo/biogo/align/pals/dp 0.081s === RUN Test OK: 1 passed --- PASS: Test (0.02s) PASS -ok github.com/biogo/biogo/align/pals/filter 0.051s +ok github.com/biogo/biogo/align/pals/filter 0.104s === RUN Test OK: 10 passed ---- PASS: Test (0.05s) +--- PASS: Test (0.11s) === RUN Example_allValid --- PASS: Example_allValid (0.00s) === RUN Example_complement --- PASS: Example_complement (0.00s) PASS -ok github.com/biogo/biogo/alphabet 0.074s +ok github.com/biogo/biogo/alphabet 0.140s === RUN Test OK: 4 passed ---- PASS: Test (2.43s) +--- PASS: Test (4.14s) PASS -ok github.com/biogo/biogo/complexity 2.476s +ok github.com/biogo/biogo/complexity 4.216s === RUN Test OK: 1 passed ---- PASS: Test (0.00s) +--- PASS: Test (0.01s) === RUN ExampleMap --- PASS: ExampleMap (0.00s) === RUN ExamplePromiseMap @@ -592,82 +628,275 @@ === RUN ExampleLazily --- PASS: ExampleLazily (0.00s) PASS -ok github.com/biogo/biogo/concurrent 1.053s +ok github.com/biogo/biogo/concurrent 1.104s === RUN Test OK: 3 passed, 1 skipped ---- PASS: Test (0.03s) +--- PASS: Test (0.00s) PASS -ok github.com/biogo/biogo/errors 0.061s +ok github.com/biogo/biogo/errors 0.073s ? github.com/biogo/biogo/feat/genome [no test files] +? github.com/biogo/biogo/feat/genome/cow/bt7 [no test files] === RUN Test OK: 6 passed ---- PASS: Test (0.01s) +--- PASS: Test (0.06s) PASS -ok github.com/biogo/biogo/feat 0.019s +ok github.com/biogo/biogo/feat 0.112s === RUN Test OK: 4 passed --- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/feat/gene 0.030s -? github.com/biogo/biogo/feat/genome/cow/bt7 [no test files] +ok github.com/biogo/biogo/feat/gene 0.056s ? github.com/biogo/biogo/feat/genome/drosophila/dm3 [no test files] ? github.com/biogo/biogo/feat/genome/human/hg19 [no test files] ? github.com/biogo/biogo/feat/genome/mouse/mm10 [no test files] ? github.com/biogo/biogo/io/seqio/fai [no test files] ? github.com/biogo/biogo/pwm [no test files] === RUN Test -OK: 5 passed ---- PASS: Test (9.16s) -PASS -ok github.com/biogo/biogo/index/kmerindex 10.073s +runtime: out of memory: cannot allocate 272629760-byte block (2809757696 in use) +fatal error: out of memory + +goroutine 18 gp=0x1403688 m=2 mp=0x1448508 [running]: +runtime.throw({0x29a499, 0xd}) + /usr/lib/go-1.23/src/runtime/panic.go:1067 +0x34 fp=0x1474a70 sp=0x1474a5c pc=0x906bc +runtime.(*mcache).allocLarge(0xb6f8a538, 0x10000004, 0x1) + /usr/lib/go-1.23/src/runtime/mcache.go:236 +0x1c4 fp=0x1474a9c sp=0x1474a70 pc=0x24cd8 +runtime.mallocgc(0x10000004, 0x269520, 0x1) + /usr/lib/go-1.23/src/runtime/malloc.go:1177 +0x708 fp=0x1474af4 sp=0x1474a9c pc=0x8af90 +runtime.makeslice(0x269520, 0x4000001, 0x4000001) + /usr/lib/go-1.23/src/runtime/slice.go:116 +0x9c fp=0x1474b08 sp=0x1474af4 pc=0x92b38 +github.com/biogo/biogo/index/kmerindex.New(0xd, 0x1462e00) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/github.com/biogo/biogo/index/kmerindex/kmerindex.go:71 +0xa0 fp=0x1474b30 sp=0x1474b08 pc=0x242cf4 +github.com/biogo/biogo/index/kmerindex.(*S).TestKmerPositions(0x142e2a0, 0x1470168) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/github.com/biogo/biogo/index/kmerindex/kmerindex_test.go:85 +0x50 fp=0x1474ca8 sp=0x1474b30 pc=0x244a00 +runtime.call16(0x146ce80, 0x72fa7a0, 0x142ed10, 0x8, 0x8, 0x8, 0x1474d50) + /usr/lib/go-1.23/src/runtime/asm_arm.s:513 +0x4c fp=0x1474cbc sp=0x1474ca8 pc=0x96524 +reflect.Value.call({0x2920b0, 0x142e2a0, 0x8a13}, {0x297e83, 0x4}, {0x1474f84, 0x1, 0x1}) + /usr/lib/go-1.23/src/reflect/value.go:581 +0x8c0 fp=0x1474ee4 sp=0x1474cbc pc=0x11041c +reflect.Value.Call({0x2920b0, 0x142e2a0, 0x8a13}, {0x14c5f84, 0x1, 0x1}) + /usr/lib/go-1.23/src/reflect/value.go:365 +0x7c fp=0x1474f20 sp=0x1474ee4 pc=0x10f988 +gopkg.in/check%2ev1.(*suiteRunner).forkTest.func1(0x1470168) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:781 +0x5fc fp=0x1474fb8 sp=0x1474f20 pc=0x237cb8 +gopkg.in/check%2ev1.(*suiteRunner).forkCall.func1() + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:675 +0x94 fp=0x1474fec sp=0x1474fb8 pc=0x237018 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1474fec sp=0x1474fec pc=0x97d24 +created by gopkg.in/check%2ev1.(*suiteRunner).forkCall in goroutine 6 + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:672 +0x22c + +goroutine 1 gp=0x1402128 m=nil [chan receive]: +runtime.gopark(0x2aa0c4, 0x1418334, 0xe, 0x7, 0x2) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1c9bc78 sp=0x1c9bc64 pc=0x907fc +runtime.chanrecv(0x1418300, 0x14a1cef, 0x1) + /usr/lib/go-1.23/src/runtime/chan.go:639 +0x4e0 fp=0x1c9bcb4 sp=0x1c9bc78 pc=0x18550 +runtime.chanrecv1(0x1418300, 0x14a1cef) + /usr/lib/go-1.23/src/runtime/chan.go:489 +0x20 fp=0x1c9bcc8 sp=0x1c9bcb4 pc=0x18040 +testing.(*T).Run(0x14b6008, {0x297d37, 0x4}, 0x2a9fc4) + /usr/lib/go-1.23/src/testing/testing.go:1751 +0x3f4 fp=0x1c9bd40 sp=0x1c9bcc8 pc=0x1565ac +testing.runTests.func1(0x14b6008) + /usr/lib/go-1.23/src/testing/testing.go:2168 +0x48 fp=0x1c9bd60 sp=0x1c9bd40 pc=0x158888 +testing.tRunner(0x14b6008, 0x14a1e1c) + /usr/lib/go-1.23/src/testing/testing.go:1690 +0x124 fp=0x1c9bdc0 sp=0x1c9bd60 pc=0x155710 +testing.runTests(0x140c160, {0x452e90, 0x1, 0x1}, {0xc1d806fe1ccfc249, 0x8bb33eed0d, 0x458c48}) + /usr/lib/go-1.23/src/testing/testing.go:2166 +0x3dc fp=0x1c9be2c sp=0x1c9bdc0 pc=0x158738 +testing.(*M).Run(0x1480050) + /usr/lib/go-1.23/src/testing/testing.go:2034 +0x5f8 fp=0x1c9bf64 sp=0x1c9be2c pc=0x1570e8 +main.main() + _testmain.go:45 +0xc8 fp=0x1c9bfa8 sp=0x1c9bf64 pc=0x247c18 +runtime.main() + /usr/lib/go-1.23/src/runtime/proc.go:272 +0x2ec fp=0x1c9bfec sp=0x1c9bfa8 pc=0x53408 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1c9bfec sp=0x1c9bfec pc=0x97d24 + +goroutine 2 gp=0x1402488 m=nil [force gc (idle)]: +runtime.gopark(0x2aa23c, 0x458928, 0x11, 0xa, 0x1) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1444fd4 sp=0x1444fc0 pc=0x907fc +runtime.goparkunlock(...) + /usr/lib/go-1.23/src/runtime/proc.go:430 +runtime.forcegchelper() + /usr/lib/go-1.23/src/runtime/proc.go:337 +0xe4 fp=0x1444fec sp=0x1444fd4 pc=0x53874 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1444fec sp=0x1444fec pc=0x97d24 +created by runtime.init.6 in goroutine 1 + /usr/lib/go-1.23/src/runtime/proc.go:325 +0x1c + +goroutine 3 gp=0x14027e8 m=nil [GC sweep wait]: +runtime.gopark(0x2aa23c, 0x458ad0, 0xc, 0x9, 0x1) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x14457c4 sp=0x14457b0 pc=0x907fc +runtime.goparkunlock(...) + /usr/lib/go-1.23/src/runtime/proc.go:430 +runtime.bgsweep(0x1418040) + /usr/lib/go-1.23/src/runtime/mgcsweep.go:317 +0x11c fp=0x14457e4 sp=0x14457c4 pc=0x39cf8 +runtime.gcenable.gowrap1() + /usr/lib/go-1.23/src/runtime/mgc.go:204 +0x28 fp=0x14457ec sp=0x14457e4 pc=0x29ad8 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x14457ec sp=0x14457ec pc=0x97d24 +created by runtime.gcenable in goroutine 1 + /usr/lib/go-1.23/src/runtime/mgc.go:204 +0x74 + +goroutine 4 gp=0x1402908 m=nil [GC scavenge wait]: +runtime.gopark(0x2aa23c, 0x458db0, 0xd, 0xa, 0x2) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1445fb4 sp=0x1445fa0 pc=0x907fc +runtime.goparkunlock(...) + /usr/lib/go-1.23/src/runtime/proc.go:430 +runtime.(*scavengerState).park(0x458db0) + /usr/lib/go-1.23/src/runtime/mgcscavenge.go:425 +0x68 fp=0x1445fc8 sp=0x1445fb4 pc=0x37028 +runtime.bgscavenge(0x1418040) + /usr/lib/go-1.23/src/runtime/mgcscavenge.go:658 +0x60 fp=0x1445fe4 sp=0x1445fc8 pc=0x37758 +runtime.gcenable.gowrap2() + /usr/lib/go-1.23/src/runtime/mgc.go:205 +0x28 fp=0x1445fec sp=0x1445fe4 pc=0x29a84 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1445fec sp=0x1445fec pc=0x97d24 +created by runtime.gcenable in goroutine 1 + /usr/lib/go-1.23/src/runtime/mgc.go:205 +0xbc + +goroutine 5 gp=0x1402c68 m=nil [finalizer wait]: +runtime.gopark(0x2aa0e4, 0x462d5c, 0x10, 0xa, 0x1) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x144478c sp=0x1444778 pc=0x907fc +runtime.runfinq() + /usr/lib/go-1.23/src/runtime/mfinal.go:193 +0x110 fp=0x14447ec sp=0x144478c pc=0x288f8 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x14447ec sp=0x14447ec pc=0x97d24 +created by runtime.createfing in goroutine 1 + /usr/lib/go-1.23/src/runtime/mfinal.go:163 +0x5c + +goroutine 6 gp=0x1403448 m=nil [chan receive]: +runtime.gopark(0x2aa0c4, 0x1462374, 0xe, 0x7, 0x2) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1476e24 sp=0x1476e10 pc=0x907fc +runtime.chanrecv(0x1462340, 0x0, 0x1) + /usr/lib/go-1.23/src/runtime/chan.go:639 +0x4e0 fp=0x1476e60 sp=0x1476e24 pc=0x18550 +runtime.chanrecv1(0x1462340, 0x0) + /usr/lib/go-1.23/src/runtime/chan.go:489 +0x20 fp=0x1476e74 sp=0x1476e60 pc=0x18040 +gopkg.in/check%2ev1.(*suiteRunner).runTest(...) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:819 +gopkg.in/check%2ev1.(*suiteRunner).run(0x14800f0) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:624 +0x280 fp=0x1476e9c sp=0x1476e74 pc=0x236c7c +gopkg.in/check%2ev1.Run({0x2920b0, 0x142e2a0}, 0x144674c) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/run.go:92 +0x38 fp=0x1476eb0 sp=0x1476e9c pc=0x23c508 +gopkg.in/check%2ev1.RunAll(0x1476f4c) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/run.go:84 +0x84 fp=0x1476ee8 sp=0x1476eb0 pc=0x23c368 +gopkg.in/check%2ev1.TestingT(0x14b6108) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/run.go:72 +0x298 fp=0x1476f78 sp=0x1476ee8 pc=0x23c044 +github.com/biogo/biogo/index/kmerindex.Test(0x14b6108) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/github.com/biogo/biogo/index/kmerindex/kmerindex_test.go:20 +0x1c fp=0x1476f80 sp=0x1476f78 pc=0x243a98 +testing.tRunner(0x14b6108, 0x2a9fc4) + /usr/lib/go-1.23/src/testing/testing.go:1690 +0x124 fp=0x1476fe0 sp=0x1476f80 pc=0x155710 +testing.(*T).Run.gowrap1() + /usr/lib/go-1.23/src/testing/testing.go:1743 +0x30 fp=0x1476fec sp=0x1476fe0 pc=0x15672c +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1476fec sp=0x1476fec pc=0x97d24 +created by testing.(*T).Run in goroutine 1 + /usr/lib/go-1.23/src/testing/testing.go:1743 +0x3d4 + +goroutine 7 gp=0x1403568 m=nil [select]: +runtime.gopark(0x2aa26c, 0x0, 0x9, 0x3, 0x1) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x14466cc sp=0x14466b8 pc=0x907fc +runtime.selectgo(0x14467d4, 0x14467ac, 0x0, 0x0, 0x2, 0x1) + /usr/lib/go-1.23/src/runtime/select.go:335 +0xb68 fp=0x1446778 sp=0x14466cc pc=0x68948 +gopkg.in/check%2ev1.(*resultTracker)._loopRoutine(0x14800a0) + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:470 +0x80 fp=0x14467e4 sp=0x1446778 pc=0x235f10 +gopkg.in/check%2ev1.(*resultTracker).start.gowrap1() + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:450 +0x28 fp=0x14467ec sp=0x14467e4 pc=0x235e64 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x14467ec sp=0x14467ec pc=0x97d24 +created by gopkg.in/check%2ev1.(*resultTracker).start in goroutine 6 + /build/reproducible-path/golang-github-biogo-biogo-1.0.4/_build/src/gopkg.in/check.v1/check.go:450 +0x58 + +goroutine 10 gp=0x14037a8 m=nil [GC worker (idle)]: +runtime.gopark(0x2aa0f4, 0x1414468, 0x1a, 0xa, 0x0) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1441f88 sp=0x1441f74 pc=0x907fc +runtime.gcBgMarkWorker(0x1418800) + /usr/lib/go-1.23/src/runtime/mgc.go:1412 +0xf4 fp=0x1441fe4 sp=0x1441f88 pc=0x2c984 +runtime.gcBgMarkStartWorkers.gowrap1() + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x28 fp=0x1441fec sp=0x1441fe4 pc=0x2c864 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1441fec sp=0x1441fec pc=0x97d24 +created by runtime.gcBgMarkStartWorkers in goroutine 9 + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x14c + +goroutine 11 gp=0x14038c8 m=nil [GC worker (idle)]: +runtime.gopark(0x2aa0f4, 0x1414480, 0x1a, 0xa, 0x0) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1441788 sp=0x1441774 pc=0x907fc +runtime.gcBgMarkWorker(0x1418800) + /usr/lib/go-1.23/src/runtime/mgc.go:1412 +0xf4 fp=0x14417e4 sp=0x1441788 pc=0x2c984 +runtime.gcBgMarkStartWorkers.gowrap1() + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x28 fp=0x14417ec sp=0x14417e4 pc=0x2c864 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x14417ec sp=0x14417ec pc=0x97d24 +created by runtime.gcBgMarkStartWorkers in goroutine 9 + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x14c + +goroutine 12 gp=0x14039e8 m=nil [GC worker (idle)]: +runtime.gopark(0x2aa0f4, 0x1414498, 0x1a, 0xa, 0x0) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1442788 sp=0x1442774 pc=0x907fc +runtime.gcBgMarkWorker(0x1418800) + /usr/lib/go-1.23/src/runtime/mgc.go:1412 +0xf4 fp=0x14427e4 sp=0x1442788 pc=0x2c984 +runtime.gcBgMarkStartWorkers.gowrap1() + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x28 fp=0x14427ec sp=0x14427e4 pc=0x2c864 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x14427ec sp=0x14427ec pc=0x97d24 +created by runtime.gcBgMarkStartWorkers in goroutine 9 + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x14c + +goroutine 13 gp=0x1403b08 m=nil [GC worker (idle)]: +runtime.gopark(0x2aa0f4, 0x14144b0, 0x1a, 0xa, 0x0) + /usr/lib/go-1.23/src/runtime/proc.go:424 +0x104 fp=0x1442f88 sp=0x1442f74 pc=0x907fc +runtime.gcBgMarkWorker(0x1418800) + /usr/lib/go-1.23/src/runtime/mgc.go:1412 +0xf4 fp=0x1442fe4 sp=0x1442f88 pc=0x2c984 +runtime.gcBgMarkStartWorkers.gowrap1() + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x28 fp=0x1442fec sp=0x1442fe4 pc=0x2c864 +runtime.goexit({}) + /usr/lib/go-1.23/src/runtime/asm_arm.s:884 +0x4 fp=0x1442fec sp=0x1442fec pc=0x97d24 +created by runtime.gcBgMarkStartWorkers in goroutine 9 + /usr/lib/go-1.23/src/runtime/mgc.go:1328 +0x14c +FAIL github.com/biogo/biogo/index/kmerindex 34.163s === RUN Test OK: 2 passed ---- PASS: Test (0.01s) +--- PASS: Test (0.02s) PASS -ok github.com/biogo/biogo/io/featio 0.029s +ok github.com/biogo/biogo/io/featio 0.091s === RUN Test OK: 4 passed --- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/io/featio/bed 0.037s +ok github.com/biogo/biogo/io/featio/bed 0.057s === RUN Test OK: 5 passed ---- PASS: Test (0.03s) +--- PASS: Test (0.06s) PASS -ok github.com/biogo/biogo/io/featio/gff 0.059s +ok github.com/biogo/biogo/io/featio/gff 0.100s === RUN TestSeqio --- PASS: TestSeqio (0.00s) === RUN Test OK: 3 passed ---- PASS: Test (0.00s) +--- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/io/seqio 0.041s +ok github.com/biogo/biogo/io/seqio 0.075s === RUN Test OK: 2 passed --- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/io/seqio/alignio 0.041s +ok github.com/biogo/biogo/io/seqio/alignio 0.092s === RUN Test OK: 2 passed ---- PASS: Test (0.00s) +--- PASS: Test (0.03s) === RUN ExampleReader --- PASS: ExampleReader (0.00s) PASS -ok github.com/biogo/biogo/io/seqio/fasta 0.014s +ok github.com/biogo/biogo/io/seqio/fasta 0.052s === RUN Test OK: 2 passed --- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/io/seqio/fastq 0.019s +ok github.com/biogo/biogo/io/seqio/fastq 0.066s === RUN Test OK: 7 passed ---- PASS: Test (19.97s) +--- PASS: Test (17.40s) PASS -ok github.com/biogo/biogo/morass 19.995s +ok github.com/biogo/biogo/morass 17.472s === RUN TestSeq --- PASS: TestSeq (0.00s) PASS -ok github.com/biogo/biogo/seq 0.029s +ok github.com/biogo/biogo/seq 0.072s === RUN Test OK: 1 passed --- PASS: Test (0.01s) @@ -708,7 +937,7 @@ === RUN ExampleQSeq_truncate --- PASS: ExampleQSeq_truncate (0.00s) PASS -ok github.com/biogo/biogo/seq/alignment 0.032s +ok github.com/biogo/biogo/seq/alignment 0.057s === RUN Test OK: 1 passed --- PASS: Test (0.02s) @@ -735,7 +964,7 @@ === RUN ExampleSeq_compose --- PASS: ExampleSeq_compose (0.00s) PASS -ok github.com/biogo/biogo/seq/linear 0.042s +ok github.com/biogo/biogo/seq/linear 0.099s === RUN Test OK: 1 passed --- PASS: Test (0.01s) @@ -768,15 +997,15 @@ === RUN ExampleSet_Len --- PASS: ExampleSet_Len (0.00s) PASS -ok github.com/biogo/biogo/seq/multi 0.022s +ok github.com/biogo/biogo/seq/multi 0.068s === RUN Test OK: 1 passed ---- PASS: Test (0.00s) +--- PASS: Test (0.01s) PASS -ok github.com/biogo/biogo/seq/quality 0.008s +ok github.com/biogo/biogo/seq/quality 0.064s === RUN Test OK: 4 passed ---- PASS: Test (0.01s) +--- PASS: Test (0.03s) === RUN ExampleTruncate_a --- PASS: ExampleTruncate_a (0.00s) === RUN ExampleTruncate_b @@ -786,44 +1015,28 @@ === RUN ExampleStitch --- PASS: ExampleStitch (0.00s) PASS -ok github.com/biogo/biogo/seq/sequtils 0.041s +ok github.com/biogo/biogo/seq/sequtils 0.074s === RUN Test OK: 11 passed ---- PASS: Test (0.12s) +--- PASS: Test (0.09s) PASS -ok github.com/biogo/biogo/util 0.133s - create-stamp debian/debhelper-build-stamp - dh_testroot -O--builddirectory=_build -O--buildsystem=golang - dh_prep -O--builddirectory=_build -O--buildsystem=golang - dh_auto_install --destdir=debian/golang-github-biogo-biogo-dev/ -O--builddirectory=_build -O--buildsystem=golang - dh_installdocs -O--builddirectory=_build -O--buildsystem=golang - dh_installchangelogs -O--builddirectory=_build -O--buildsystem=golang - dh_installsystemduser -O--builddirectory=_build -O--buildsystem=golang - dh_perl -O--builddirectory=_build -O--buildsystem=golang - dh_link -O--builddirectory=_build -O--buildsystem=golang - dh_strip_nondeterminism -O--builddirectory=_build -O--buildsystem=golang - dh_compress -O--builddirectory=_build -O--buildsystem=golang - dh_fixperms -O--builddirectory=_build -O--buildsystem=golang - dh_missing -O--builddirectory=_build -O--buildsystem=golang - dh_installdeb -O--builddirectory=_build -O--buildsystem=golang - dh_golang -O--builddirectory=_build -O--buildsystem=golang - dh_gencontrol -O--builddirectory=_build -O--buildsystem=golang - dh_md5sums -O--builddirectory=_build -O--buildsystem=golang - dh_builddeb -O--builddirectory=_build -O--buildsystem=golang -dpkg-deb: building package 'golang-github-biogo-biogo-dev' in '../golang-github-biogo-biogo-dev_1.0.4-1_all.deb'. - dpkg-genbuildinfo --build=binary -O../golang-github-biogo-biogo_1.0.4-1_armhf.buildinfo - dpkg-genchanges --build=binary -O../golang-github-biogo-biogo_1.0.4-1_armhf.changes -dpkg-genchanges: info: binary-only upload (no source code included) - dpkg-source --after-build . -dpkg-buildpackage: info: binary-only upload (no source included) -dpkg-genchanges: info: including full source code in upload +ok github.com/biogo/biogo/util 0.151s +FAIL +dh_auto_test: error: cd _build && go test -vet=off -v -p 4 github.com/biogo/biogo github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 github.com/biogo/biogo/feat/genome/drosophila/dm3 github.com/biogo/biogo/feat/genome/human/hg19 github.com/biogo/biogo/feat/genome/mouse/mm10 github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass github.com/biogo/biogo/pwm github.com/biogo/biogo/seq github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util returned exit code 1 +make: *** [debian/rules:4: binary] Error 25 +dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration +E: Failed autobuilding of package +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/C01_cleanup starting +debug output: disk usage on i-capture-the-hostname at Thu Jan 9 10:17:39 UTC 2025 +Filesystem Size Used Avail Use% Mounted on +tmpfs 7.7G 0 7.7G 0% /dev/shm + +I: user script /srv/workspace/pbuilder/15879/tmp/hooks/C01_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/31129 and its subdirectories -I: Current time: Wed Jan 8 22:11:51 -12 2025 -I: pbuilder-time-stamp: 1736417511 +I: removing directory /srv/workspace/pbuilder/15879 and its subdirectories