Diff of the two buildlogs: -- --- b1/build.log 2024-05-16 00:46:44.096760414 +0000 +++ b2/build.log 2024-05-16 01:41:55.615899716 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jun 17 19:04:28 -12 2025 -I: pbuilder-time-stamp: 1750230268 +I: Current time: Thu May 16 14:46:48 +14 2024 +I: pbuilder-time-stamp: 1715820408 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying ignore-warnings-in-tests.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1283422/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/96579/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 16 00:47 /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/96579/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/96579/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + 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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='944921df8c134af08d16dd609fbaf935' - 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='1283422' - PS1='# ' - PS2='> ' + INVOCATION_ID=9800426bdd3f4e9e9d6347227cd2333f + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=96579 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.imKBoxJK/pbuilderrc_yLeV --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.imKBoxJK/b1 --logfile b1/build.log cnvkit_0.9.10-2.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.imKBoxJK/pbuilderrc_idPQ --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.imKBoxJK/b2 --logfile b2/build.log cnvkit_0.9.10-2.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 17 17:46 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1283422/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 14 11:24 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/96579/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -353,7 +385,7 @@ Get: 210 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.0-2 [28.2 MB] Get: 211 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.48.1-2 [597 kB] Get: 212 http://deb.debian.org/debian trixie/main amd64 r-bioc-dnacopy amd64 1.76.0-1 [380 kB] -Fetched 182 MB in 8s (24.0 MB/s) +Fetched 182 MB in 15s (12.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 19699 files and directories currently installed.) @@ -1046,8 +1078,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Jun 18 07:05:41 UTC 2025. -Universal Time is now: Wed Jun 18 07:05:41 UTC 2025. +Local time is now: Thu May 16 00:51:38 UTC 2024. +Universal Time is now: Thu May 16 00:51:38 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1255,7 +1287,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cnvkit-0.9.10/ && 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 > ../cnvkit_0.9.10-2_source.changes +I: user script /srv/workspace/pbuilder/96579/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/96579/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cnvkit-0.9.10/ && 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 > ../cnvkit_0.9.10-2_source.changes dpkg-buildpackage: info: source package cnvkit dpkg-buildpackage: info: source version 0.9.10-2 dpkg-buildpackage: info: source distribution unstable @@ -1290,72 +1326,72 @@ creating build creating build/lib creating build/lib/cnvlib -copying cnvlib/diagram.py -> build/lib/cnvlib -copying cnvlib/scatter.py -> build/lib/cnvlib +copying cnvlib/reports.py -> build/lib/cnvlib copying cnvlib/cnvkit.py -> build/lib/cnvlib -copying cnvlib/rna.py -> build/lib/cnvlib -copying cnvlib/importers.py -> build/lib/cnvlib +copying cnvlib/metrics.py -> build/lib/cnvlib +copying cnvlib/antitarget.py -> build/lib/cnvlib +copying cnvlib/segmetrics.py -> build/lib/cnvlib copying cnvlib/target.py -> build/lib/cnvlib copying cnvlib/segfilters.py -> build/lib/cnvlib +copying cnvlib/diagram.py -> build/lib/cnvlib +copying cnvlib/cnary.py -> build/lib/cnvlib +copying cnvlib/vary.py -> build/lib/cnvlib +copying cnvlib/commands.py -> build/lib/cnvlib +copying cnvlib/autobin.py -> build/lib/cnvlib copying cnvlib/samutil.py -> build/lib/cnvlib -copying cnvlib/antitarget.py -> build/lib/cnvlib +copying cnvlib/core.py -> build/lib/cnvlib +copying cnvlib/heatmap.py -> build/lib/cnvlib copying cnvlib/cmdutil.py -> build/lib/cnvlib -copying cnvlib/call.py -> build/lib/cnvlib -copying cnvlib/bintest.py -> build/lib/cnvlib +copying cnvlib/access.py -> build/lib/cnvlib copying cnvlib/descriptives.py -> build/lib/cnvlib -copying cnvlib/batch.py -> build/lib/cnvlib -copying cnvlib/commands.py -> build/lib/cnvlib copying cnvlib/import_rna.py -> build/lib/cnvlib -copying cnvlib/segmetrics.py -> build/lib/cnvlib -copying cnvlib/parallel.py -> build/lib/cnvlib -copying cnvlib/core.py -> build/lib/cnvlib +copying cnvlib/__init__.py -> build/lib/cnvlib +copying cnvlib/call.py -> build/lib/cnvlib +copying cnvlib/smoothing.py -> build/lib/cnvlib copying cnvlib/export.py -> build/lib/cnvlib +copying cnvlib/parallel.py -> build/lib/cnvlib +copying cnvlib/rna.py -> build/lib/cnvlib +copying cnvlib/params.py -> build/lib/cnvlib +copying cnvlib/bintest.py -> build/lib/cnvlib +copying cnvlib/plots.py -> build/lib/cnvlib +copying cnvlib/coverage.py -> build/lib/cnvlib +copying cnvlib/scatter.py -> build/lib/cnvlib +copying cnvlib/batch.py -> build/lib/cnvlib copying cnvlib/cluster.py -> build/lib/cnvlib copying cnvlib/_version.py -> build/lib/cnvlib -copying cnvlib/coverage.py -> build/lib/cnvlib -copying cnvlib/__init__.py -> build/lib/cnvlib -copying cnvlib/access.py -> build/lib/cnvlib +copying cnvlib/importers.py -> build/lib/cnvlib copying cnvlib/reference.py -> build/lib/cnvlib -copying cnvlib/metrics.py -> build/lib/cnvlib -copying cnvlib/heatmap.py -> build/lib/cnvlib -copying cnvlib/cnary.py -> build/lib/cnvlib -copying cnvlib/params.py -> build/lib/cnvlib -copying cnvlib/vary.py -> build/lib/cnvlib -copying cnvlib/plots.py -> build/lib/cnvlib -copying cnvlib/reports.py -> build/lib/cnvlib -copying cnvlib/autobin.py -> build/lib/cnvlib copying cnvlib/fix.py -> build/lib/cnvlib -copying cnvlib/smoothing.py -> build/lib/cnvlib creating build/lib/cnvlib/segmentation -copying cnvlib/segmentation/cbs.py -> build/lib/cnvlib/segmentation -copying cnvlib/segmentation/none.py -> build/lib/cnvlib/segmentation +copying cnvlib/segmentation/haar.py -> build/lib/cnvlib/segmentation copying cnvlib/segmentation/__init__.py -> build/lib/cnvlib/segmentation copying cnvlib/segmentation/hmm.py -> build/lib/cnvlib/segmentation +copying cnvlib/segmentation/none.py -> build/lib/cnvlib/segmentation +copying cnvlib/segmentation/cbs.py -> build/lib/cnvlib/segmentation copying cnvlib/segmentation/flasso.py -> build/lib/cnvlib/segmentation -copying cnvlib/segmentation/haar.py -> build/lib/cnvlib/segmentation creating build/lib/skgenome -copying skgenome/chromsort.py -> build/lib/skgenome -copying skgenome/intersect.py -> build/lib/skgenome -copying skgenome/__init__.py -> build/lib/skgenome -copying skgenome/merge.py -> build/lib/skgenome copying skgenome/combiners.py -> build/lib/skgenome -copying skgenome/subtract.py -> build/lib/skgenome -copying skgenome/rangelabel.py -> build/lib/skgenome +copying skgenome/merge.py -> build/lib/skgenome copying skgenome/subdivide.py -> build/lib/skgenome +copying skgenome/chromsort.py -> build/lib/skgenome +copying skgenome/__init__.py -> build/lib/skgenome copying skgenome/gary.py -> build/lib/skgenome +copying skgenome/intersect.py -> build/lib/skgenome +copying skgenome/rangelabel.py -> build/lib/skgenome +copying skgenome/subtract.py -> build/lib/skgenome creating build/lib/skgenome/tabio +copying skgenome/tabio/picard.py -> build/lib/skgenome/tabio +copying skgenome/tabio/gff.py -> build/lib/skgenome/tabio copying skgenome/tabio/textcoord.py -> build/lib/skgenome/tabio +copying skgenome/tabio/seg.py -> build/lib/skgenome/tabio copying skgenome/tabio/tab.py -> build/lib/skgenome/tabio -copying skgenome/tabio/bedio.py -> build/lib/skgenome/tabio -copying skgenome/tabio/seqdict.py -> build/lib/skgenome/tabio copying skgenome/tabio/genepred.py -> build/lib/skgenome/tabio -copying skgenome/tabio/vcfsimple.py -> build/lib/skgenome/tabio -copying skgenome/tabio/picard.py -> build/lib/skgenome/tabio -copying skgenome/tabio/seg.py -> build/lib/skgenome/tabio copying skgenome/tabio/__init__.py -> build/lib/skgenome/tabio -copying skgenome/tabio/vcfio.py -> build/lib/skgenome/tabio +copying skgenome/tabio/vcfsimple.py -> build/lib/skgenome/tabio +copying skgenome/tabio/seqdict.py -> build/lib/skgenome/tabio +copying skgenome/tabio/bedio.py -> build/lib/skgenome/tabio copying skgenome/tabio/util.py -> build/lib/skgenome/tabio -copying skgenome/tabio/gff.py -> build/lib/skgenome/tabio +copying skgenome/tabio/vcfio.py -> build/lib/skgenome/tabio running egg_info creating CNVkit.egg-info writing CNVkit.egg-info/PKG-INFO @@ -1373,77 +1409,77 @@ creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/chromsort.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/intersect.py -> build/bdist.linux-x86_64/wheel/skgenome creating build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/picard.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/gff.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/textcoord.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/seg.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/tab.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/bedio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/seqdict.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/genepred.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/vcfsimple.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/picard.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/seg.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/vcfio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/vcfsimple.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/seqdict.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/bedio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/util.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/gff.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/merge.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/tabio/vcfio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/combiners.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/subtract.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/rangelabel.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/merge.py -> build/bdist.linux-x86_64/wheel/skgenome copying build/lib/skgenome/subdivide.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/chromsort.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome copying build/lib/skgenome/gary.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/intersect.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/rangelabel.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/subtract.py -> build/bdist.linux-x86_64/wheel/skgenome creating build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/diagram.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/scatter.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/reports.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/cnvkit.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/rna.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/importers.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/target.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/segfilters.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/samutil.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/metrics.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/antitarget.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/cmdutil.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/call.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/bintest.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/descriptives.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/batch.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/commands.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/import_rna.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/segmetrics.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/target.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/segfilters.py -> build/bdist.linux-x86_64/wheel/cnvlib creating build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/cbs.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/none.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/haar.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/hmm.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/none.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/cbs.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/flasso.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/haar.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/parallel.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/diagram.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/cnary.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/vary.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/commands.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/autobin.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/samutil.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/core.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/heatmap.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/cmdutil.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/access.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/descriptives.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/import_rna.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/call.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/smoothing.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/export.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/parallel.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/rna.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/params.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/bintest.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/plots.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/coverage.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/scatter.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/batch.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/cluster.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/_version.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/coverage.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/access.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/importers.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/reference.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/metrics.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/heatmap.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/cnary.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/params.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/vary.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/plots.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/reports.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/autobin.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/fix.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/smoothing.py -> build/bdist.linux-x86_64/wheel/cnvlib running install_egg_info Copying CNVkit.egg-info to build/bdist.linux-x86_64/wheel/CNVkit-0.9.10.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/CNVkit-0.9.10.dist-info/WHEEL -creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.12_cnvkit/.tmp-uzwj4meo/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it +creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.12_cnvkit/.tmp-fh_b4kzf/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'cnvlib/__init__.py' adding 'cnvlib/_version.py' adding 'cnvlib/access.py' @@ -1536,77 +1572,77 @@ running install_lib creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/chromsort.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/intersect.py -> build/bdist.linux-x86_64/wheel/skgenome creating build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/picard.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/gff.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/textcoord.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/seg.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/tab.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/bedio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/seqdict.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/genepred.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/vcfsimple.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/picard.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/seg.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/vcfio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/vcfsimple.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/seqdict.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio +copying build/lib/skgenome/tabio/bedio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/tabio/util.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/tabio/gff.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio -copying build/lib/skgenome/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/merge.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/tabio/vcfio.py -> build/bdist.linux-x86_64/wheel/skgenome/tabio copying build/lib/skgenome/combiners.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/subtract.py -> build/bdist.linux-x86_64/wheel/skgenome -copying build/lib/skgenome/rangelabel.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/merge.py -> build/bdist.linux-x86_64/wheel/skgenome copying build/lib/skgenome/subdivide.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/chromsort.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/__init__.py -> build/bdist.linux-x86_64/wheel/skgenome copying build/lib/skgenome/gary.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/intersect.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/rangelabel.py -> build/bdist.linux-x86_64/wheel/skgenome +copying build/lib/skgenome/subtract.py -> build/bdist.linux-x86_64/wheel/skgenome creating build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/diagram.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/scatter.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/reports.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/cnvkit.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/rna.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/importers.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/target.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/segfilters.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/samutil.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/metrics.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/antitarget.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/cmdutil.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/call.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/bintest.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/descriptives.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/batch.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/commands.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/import_rna.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/segmetrics.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/target.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/segfilters.py -> build/bdist.linux-x86_64/wheel/cnvlib creating build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/cbs.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/none.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/haar.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/hmm.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/none.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation +copying build/lib/cnvlib/segmentation/cbs.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation copying build/lib/cnvlib/segmentation/flasso.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/segmentation/haar.py -> build/bdist.linux-x86_64/wheel/cnvlib/segmentation -copying build/lib/cnvlib/parallel.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/diagram.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/cnary.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/vary.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/commands.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/autobin.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/samutil.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/core.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/heatmap.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/cmdutil.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/access.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/descriptives.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/import_rna.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/call.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/smoothing.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/export.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/parallel.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/rna.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/params.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/bintest.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/plots.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/coverage.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/scatter.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/batch.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/cluster.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/_version.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/coverage.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/__init__.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/access.py -> build/bdist.linux-x86_64/wheel/cnvlib +copying build/lib/cnvlib/importers.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/reference.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/metrics.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/heatmap.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/cnary.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/params.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/vary.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/plots.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/reports.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/autobin.py -> build/bdist.linux-x86_64/wheel/cnvlib copying build/lib/cnvlib/fix.py -> build/bdist.linux-x86_64/wheel/cnvlib -copying build/lib/cnvlib/smoothing.py -> build/bdist.linux-x86_64/wheel/cnvlib running install_egg_info Copying CNVkit.egg-info to build/bdist.linux-x86_64/wheel/CNVkit-0.9.10.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/CNVkit-0.9.10.dist-info/WHEEL -creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/.tmp-trrjvy7s/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it +creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/.tmp-hrzig3g1/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'cnvlib/__init__.py' adding 'cnvlib/_version.py' adding 'cnvlib/access.py' @@ -1741,7 +1777,7 @@ return sep.join(pd.unique(elems)) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -======================= 64 passed, 46 warnings in 49.10s ======================= +================= 64 passed, 46 warnings in 708.95s (0:11:48) ================== I: pybuild pybuild:308: ln -s /build/reproducible-path/cnvkit-0.9.10/data /build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/build/data; I: pybuild base:311: cd /build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/build; python3.11 -m pytest test ============================= test session starts ============================== @@ -1803,7 +1839,7 @@ return sep.join(pd.unique(elems)) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -======================= 64 passed, 46 warnings in 50.62s ======================= +================= 64 passed, 46 warnings in 761.64s (0:12:41) ================== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -1843,12 +1879,14 @@ 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/96579/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/96579/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/1283422 and its subdirectories -I: Current time: Tue Jun 17 19:09:43 -12 2025 -I: pbuilder-time-stamp: 1750230583 +I: removing directory /srv/workspace/pbuilder/96579 and its subdirectories +I: Current time: Thu May 16 15:41:54 +14 2024 +I: pbuilder-time-stamp: 1715823714