Diff of the two buildlogs: -- --- b1/build.log 2024-05-11 09:18:18.925338193 +0000 +++ b2/build.log 2024-05-11 09:33:41.066090958 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Jun 13 03:38:33 -12 2025 -I: pbuilder-time-stamp: 1749829113 +I: Current time: Sat May 11 23:18:23 +14 2024 +I: pbuilder-time-stamp: 1715419103 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -29,52 +29,84 @@ dpkg-source: info: applying python3.12.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3826713/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2833551/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 11 09:18 /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/2833551/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2833551/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='e04f1848eb9c4b678b3fd784f6eca6f7' - 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='3826713' - PS1='# ' - PS2='> ' + INVOCATION_ID=79d5337a390d4ecea2fc428fe03946c6 + 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=2833551 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.1Twj95rD/pbuilderrc_Eekd --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.1Twj95rD/b1 --logfile b1/build.log ragout_2.3-5.dsc' - SUDO_GID='110' - SUDO_UID='105' - 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.1Twj95rD/pbuilderrc_nJ7e --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.1Twj95rD/b2 --logfile b2/build.log ragout_2.3-5.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 ionos5-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 10 17:46 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3826713/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 8 11:26 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2833551/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -180,7 +212,7 @@ Get: 58 http://deb.debian.org/debian trixie/main amd64 python3-dev amd64 3.11.8-1 [26.1 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 python3-networkx all 2.8.8-2 [1425 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 python3-six all 1.16.0-6 [16.3 kB] -Fetched 36.0 MB in 1s (38.8 MB/s) +Fetched 36.0 MB in 2s (15.1 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.) @@ -388,8 +420,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri Jun 13 15:39:24 UTC 2025. -Universal Time is now: Fri Jun 13 15:39:24 UTC 2025. +Local time is now: Sat May 11 09:20:40 UTC 2024. +Universal Time is now: Sat May 11 09:20:40 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -447,7 +479,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/ragout-2.3/ && 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 > ../ragout_2.3-5_source.changes +I: user script /srv/workspace/pbuilder/2833551/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2833551/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/ragout-2.3/ && 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 > ../ragout_2.3-5_source.changes dpkg-buildpackage: info: source package ragout dpkg-buildpackage: info: source version 2.3-5 dpkg-buildpackage: info: source distribution unstable @@ -489,58 +525,58 @@ copying ragout/assembly_graph/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph copying ragout/assembly_graph/assembly_refine.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/breakpoint_graph.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/chimera_detector.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/inferer.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/repeat_resolver.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph +copying ragout/breakpoint_graph/breakpoint_graph.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph copying ragout/breakpoint_graph/permutation.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph -copying ragout/breakpoint_graph/inferer.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny -copying ragout/maf2synteny/maf2synteny.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny copying ragout/maf2synteny/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny +copying ragout/maf2synteny/maf2synteny.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap -copying ragout/overlap/overlap.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap copying ragout/overlap/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap +copying ragout/overlap/overlap.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers -copying ragout/parsers/phylogeny_parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers +copying ragout/parsers/fasta_parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers copying ragout/parsers/recipe_parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers copying ragout/parsers/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers -copying ragout/parsers/fasta_parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers +copying ragout/parsers/phylogeny_parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny +copying ragout/phylogeny/inferer.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny copying ragout/phylogeny/phylogeny.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny copying ragout/phylogeny/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny -copying ragout/phylogeny/inferer.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder copying ragout/scaffolder/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder copying ragout/scaffolder/output_generator.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder -copying ragout/scaffolder/merge_iters.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder copying ragout/scaffolder/scaffolder.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder +copying ragout/scaffolder/merge_iters.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared -copying ragout/shared/debug.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared -copying ragout/shared/datatypes.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared -copying ragout/shared/config.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared copying ragout/shared/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared +copying ragout/shared/config.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared +copying ragout/shared/datatypes.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared +copying ragout/shared/debug.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared copying ragout/shared/utils.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend -copying ragout/synteny_backend/maf.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend -copying ragout/synteny_backend/cactus.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend copying ragout/synteny_backend/synteny_backend.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend -copying ragout/synteny_backend/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend copying ragout/synteny_backend/hal.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend +copying ragout/synteny_backend/maf.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend +copying ragout/synteny_backend/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend copying ragout/synteny_backend/sibelia.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend +copying ragout/synteny_backend/cactus.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick copying ragout/newick/tree.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick -copying ragout/newick/parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick copying ragout/newick/tokens.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick copying ragout/newick/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick copying ragout/newick/lexer.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick +copying ragout/newick/parser.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests copying ragout/tests/__init__.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests copying ragout/tests/test_toy.py -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests creating /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data copying ragout/tests/data/mg1655.coords -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data -copying ragout/tests/data/DH1.fasta -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data copying ragout/tests/data/ecoli.rcp -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data +copying ragout/tests/data/DH1.fasta -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data copying ragout/tests/data/mg1655_contigs.fasta -> /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data make[1]: Entering directory '/build/reproducible-path/ragout-2.3' make -C ragout/overlap/cpp_impl all @@ -606,135 +642,135 @@ creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11 creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/maf.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/cactus.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/synteny_backend.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/hal.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/sibelia.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/maf2synteny.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__pycache__ +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__pycache__ +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/fasta_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/recipe_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/phylogeny_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__version__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/phylogeny.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/inferer.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/tree.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/tokens.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/lexer.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/phylogeny.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/phylogeny/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap/overlap.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/overlap/overlap.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/output_generator.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/scaffolder.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/merge_iters.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/test_toy.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/__pycache__/test_toy.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/test_toy.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data/mg1655.coords -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data/DH1.fasta -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data/ecoli.rcp -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data/DH1.fasta -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/tests/data/mg1655_contigs.fasta -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/data -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__version__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/output_generator.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/merge_iters.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/scaffolder/scaffolder.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/breakpoint_graph.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/chimera_detector.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/repeat_resolver.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/permutation.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/inferer.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/main.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__pycache__ creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph/assembly_refine.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph/__pycache__ -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/phylogeny_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/recipe_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/fasta_parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers -creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__pycache__ -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/parsers/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/assembly_graph/assembly_refine.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/debug.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/datatypes.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/config.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared -copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/utils.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/__pycache__ copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/__pycache__ -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/maf.py to maf.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/cactus.py to cactus.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/synteny_backend.py to synteny_backend.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/hal.py to hal.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/sibelia.py to sibelia.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/maf2synteny.py to maf2synteny.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__init__.py to __init__.cpython-311.pyc +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/config.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/datatypes.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/debug.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/shared/utils.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/main.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/maf2synteny/maf2synteny.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/tree.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/tokens.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/lexer.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/newick/parser.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/synteny_backend.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/hal.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/maf.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/sibelia.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/synteny_backend/cactus.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/chimera_detector.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +creating /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/__pycache__/__init__.cpython-311.pyc -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__pycache__ +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/inferer.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/repeat_resolver.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/__init__.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/breakpoint_graph.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +copying /build/reproducible-path/ragout-2.3/.pybuild/cpython3_3.11/build/ragout/breakpoint_graph/permutation.py -> /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/fasta_parser.py to fasta_parser.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/recipe_parser.py to recipe_parser.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/phylogeny_parser.py to phylogeny_parser.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__version__.py to __version__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/inferer.py to inferer.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/phylogeny.py to phylogeny.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/phylogeny/inferer.py to inferer.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/tree.py to tree.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/parser.py to parser.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/tokens.py to tokens.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/lexer.py to lexer.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap/overlap.py to overlap.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/test_toy.py to test_toy.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__version__.py to __version__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/overlap/overlap.py to overlap.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/output_generator.py to output_generator.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/merge_iters.py to merge_iters.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/scaffolder.py to scaffolder.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/breakpoint_graph.py to breakpoint_graph.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/chimera_detector.py to chimera_detector.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/repeat_resolver.py to repeat_resolver.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/permutation.py to permutation.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/inferer.py to inferer.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/main.py to main.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/scaffolder/merge_iters.py to merge_iters.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/tests/test_toy.py to test_toy.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/assembly_graph/assembly_refine.py to assembly_refine.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/phylogeny_parser.py to phylogeny_parser.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/recipe_parser.py to recipe_parser.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/__init__.py to __init__.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/parsers/fasta_parser.py to fasta_parser.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/debug.py to debug.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/datatypes.py to datatypes.cpython-311.pyc -byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/config.py to config.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/config.py to config.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/datatypes.py to datatypes.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/debug.py to debug.cpython-311.pyc byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/shared/utils.py to utils.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/main.py to main.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/maf2synteny/maf2synteny.py to maf2synteny.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/tree.py to tree.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/tokens.py to tokens.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/lexer.py to lexer.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/newick/parser.py to parser.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/synteny_backend.py to synteny_backend.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/hal.py to hal.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/maf.py to maf.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/sibelia.py to sibelia.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/synteny_backend/cactus.py to cactus.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/chimera_detector.py to chimera_detector.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/inferer.py to inferer.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/repeat_resolver.py to repeat_resolver.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/__init__.py to __init__.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/breakpoint_graph.py to breakpoint_graph.cpython-311.pyc +byte-compiling /build/reproducible-path/ragout-2.3/debian/tmp/usr/lib/python3.11/dist-packages/ragout/breakpoint_graph/permutation.py to permutation.cpython-311.pyc running install_egg_info running egg_info creating ragout.egg-info @@ -778,9 +814,9 @@ dpkg-gencontrol: warning: Depends field of package ragout-examples: substitution variable ${python3:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'ragout-dbgsym' in '../ragout-dbgsym_2.3-5_amd64.deb'. -dpkg-deb: building package 'ragout' in '../ragout_2.3-5_amd64.deb'. dpkg-deb: building package 'ragout-examples' in '../ragout-examples_2.3-5_all.deb'. +dpkg-deb: building package 'ragout' in '../ragout_2.3-5_amd64.deb'. +dpkg-deb: building package 'ragout-dbgsym' in '../ragout-dbgsym_2.3-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../ragout_2.3-5_amd64.buildinfo dpkg-genchanges --build=binary -O../ragout_2.3-5_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -788,12 +824,14 @@ 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/2833551/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2833551/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/3826713 and its subdirectories -I: Current time: Fri Jun 13 03:41:17 -12 2025 -I: pbuilder-time-stamp: 1749829277 +I: removing directory /srv/workspace/pbuilder/2833551 and its subdirectories +I: Current time: Sat May 11 23:33:40 +14 2024 +I: pbuilder-time-stamp: 1715420020