Start: 2024-01-11 20:01:44 GMT [bullseye] Package: yanagiba Version: 1.0.0-2 Installed-Size: 32 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-nanomath, python3-pandas, python3:any Description: filter low quality Oxford Nanopore reads basecalled with Albacore Homepage: https://github.com/Adamtaranto/Yanagiba Description-md5: af57b968c50c6245e1c69de3c25cfcb8 Section: science Priority: optional Filename: pool/main/y/yanagiba/yanagiba_1.0.0-2_all.deb Size: 6084 MD5sum: 3d886548e27fbaa62f35443b54118393 SHA256: 55c5d401ae82edceaab4b938a1a3ada394b36a943c8800a0d81d38cff8178319 [bullseye-next] Package: yanagiba Version: 1.0.0-2 Installed-Size: 32 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-nanomath, python3-pandas, python3:any Description: filter low quality Oxford Nanopore reads basecalled with Albacore Homepage: https://github.com/Adamtaranto/Yanagiba Description-md5: af57b968c50c6245e1c69de3c25cfcb8 Section: science Priority: optional Filename: pool/main/y/yanagiba/yanagiba_1.0.0-2_all.deb Size: 6084 MD5sum: 3d886548e27fbaa62f35443b54118393 SHA256: 55c5d401ae82edceaab4b938a1a3ada394b36a943c8800a0d81d38cff8178319 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt yanagiba=1.0.0-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt yanagiba=1.0.0-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-27-amd64 #1 SMP Debian 5.10.205-2 (2023-12-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpc678s8yh 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpc678s8yh 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.8s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/proc'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/proc'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/ptmx'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/ptmx'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/console'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/console'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/shm'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/shm'] 0m1.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m1.9s DEBUG: Created policy-rc.d and chmodded it. 0m1.9s DEBUG: Created resolv.conf. 0m1.9s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpc678s8yh/tmp/scripts/ 0m1.9s INFO: Running scripts post_chroot_unpack 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'update'] 0m3.0s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'update'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s DUMP: cd994be14815166bf41ad7cebd6f56fc - 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s INFO: Running scripts post_setup 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.0s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_minimize'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_minimize'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u6 install ok installed libc6:amd64 libc6 2.31-13+deb11u6 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u2 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u10 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat 0m5.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m5.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m5.5s INFO: Running scripts is_testable 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/is_testable_uninstallable'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/is_testable_uninstallable'] 0m5.5s INFO: Running scripts pre_test 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_test_exceptions'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_test_exceptions'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_test_root_password'] 0m5.6s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_test_root_password'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'show', '--no-all-versions', 'yanagiba'] 0m5.8s DUMP: Package: yanagiba Version: 1.0.0-2 Installed-Size: 32 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-nanomath, python3-pandas, python3:any Description-en: filter low quality Oxford Nanopore reads basecalled with Albacore Yanagiba is used to filter short or low quality Oxford Nanopore reads which have been basecalled with Albacore. It takes fastq.gz and an Albacore summary file as input. If no Albacore summary file is provided attempt to calculate mean qscore from directly from fastq file using NanoMath. Note: Calculated quality scores appear to be lower for reads called with Metrichor, you may need to lower your minqual setting in this case. Description-md5: af57b968c50c6245e1c69de3c25cfcb8 Homepage: https://github.com/Adamtaranto/Yanagiba Section: science Priority: optional Filename: pool/main/y/yanagiba/yanagiba_1.0.0-2_all.deb Size: 6084 MD5sum: 3d886548e27fbaa62f35443b54118393 SHA256: 55c5d401ae82edceaab4b938a1a3ada394b36a943c8800a0d81d38cff8178319 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'show', '--no-all-versions', 'yanagiba'] 0m5.8s INFO: apt-cache knows about the following packages: yanagiba 0m5.8s INFO: Running scripts pre_install 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m5.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m6.0s DUMP: yanagiba: Installed: (none) Candidate: 1.0.0-2 Version table: 1.0.0-2 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba'] 0m24.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: libblas3 libbrotli1 libbsd0 libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 libmd0 libmpdec3 libncursesw6 libperl5.32 libpng16-16 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 mailcap media-types mime-support perl perl-modules-5.32 python3 python3-biopython python3-dateutil python3-deprecated python3-minimal python3-nanomath python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-reportlab python3-reportlab-accel python3-six python3-tz python3-wrapt python3.9 python3.9-minimal readline-common Suggested packages: gdbm-l10n liblcms2-utils sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-renderpm python3-psycopg2 python3-scipy raxml samtools t-coffee wise w3-dtd-mathml gcc gfortran python-numpy-doc python3-dev python3-numpy-dbg python3-pytest python-pandas-doc python3-statsmodels python-pil-doc python3-pil-dbg python3-setuptools pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python3.9-venv python3.9-doc binutils binfmt-support readline-doc Recommended packages: libgpm2 ca-certificates bzip2 file xz-utils netbase python-biopython-doc ncbi-blast+ python3-scipy python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-xlwt python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba python3-olefile python3-renderpm The following NEW packages will be installed: libblas3 libbrotli1 libbsd0 libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 libmd0 libmpdec3 libncursesw6 libperl5.32 libpng16-16 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 mailcap media-types mime-support perl perl-modules-5.32 python3 python3-biopython python3-dateutil python3-deprecated python3-minimal python3-nanomath python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-reportlab python3-reportlab-accel python3-six python3-tz python3-wrapt python3.9 python3.9-minimal readline-common yanagiba 0 upgraded, 57 newly installed, 0 to remove and 0 not upgraded. Need to get 30.3 MB of archives. After this operation, 149 MB of additional disk space will be used. 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bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 libncursesw6 amd64 6.2+20201114-2+deb11u2 [132 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-0 amd64 3.34.1-3 [797 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:27 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:34 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1+deb11u2 [259 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1+deb11u4 [290 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 libwebpdemux2 amd64 0.6.1-2.1+deb11u2 [87.8 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libwebpmux3 amd64 0.6.1-2.1+deb11u2 [97.7 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab-accel amd64 3.5.59-2 [39.1 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 python3-pil amd64 8.1.2+dfsg-0.3+deb11u1 [445 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab all 3.5.59-2 [575 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 python3-biopython amd64 1.78+dfsg-4 [1402 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 python3-dateutil all 2.8.1-6 [79.2 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 python3-wrapt amd64 1.12.1-4+b1 [39.3 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 python3-deprecated all 1.2.11-1 [12.9 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 python3-tz all 2021.1-1 [34.8 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 python3-pandas-lib amd64 1.1.5+dfsg-2 [3287 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 python3-pandas all 1.1.5+dfsg-2 [2096 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 python3-nanomath all 1.2.0+ds-1 [8016 B] Get:57 http://deb.debian.org/debian bullseye/main amd64 yanagiba all 1.0.0-2 [6084 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 30.3 MB in 1s (28.0 MB/s) Selecting previously unselected package perl-modules-5.32. 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Preparing to unpack .../14-liblcms2-2_2.12~rc1-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.12~rc1-2) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../15-libwebp6_0.6.1-2.1+deb11u2_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../16-libtiff5_4.2.0-1+deb11u4_amd64.deb ... Unpacking libtiff5:amd64 (4.2.0-1+deb11u4) ... Selecting previously unselected package libwebpdemux2:amd64. Preparing to unpack .../17-libwebpdemux2_0.6.1-2.1+deb11u2_amd64.deb ... Unpacking libwebpdemux2:amd64 (0.6.1-2.1+deb11u2) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../18-libwebpmux3_0.6.1-2.1+deb11u2_amd64.deb ... Unpacking libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../19-libxau6_1%3a1.0.9-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1) ... 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Unpacking python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../26-python3-reportlab_3.5.59-2_all.deb ... Unpacking python3-reportlab (3.5.59-2) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../27-python3-biopython_1.78+dfsg-4_amd64.deb ... Unpacking python3-biopython (1.78+dfsg-4) ... Selecting previously unselected package python3-six. Preparing to unpack .../28-python3-six_1.16.0-2_all.deb ... Unpacking python3-six (1.16.0-2) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../29-python3-dateutil_2.8.1-6_all.deb ... Unpacking python3-dateutil (2.8.1-6) ... Selecting previously unselected package python3-wrapt. Preparing to unpack .../30-python3-wrapt_1.12.1-4+b1_amd64.deb ... Unpacking python3-wrapt (1.12.1-4+b1) ... Selecting previously unselected package python3-deprecated. Preparing to unpack .../31-python3-deprecated_1.2.11-1_all.deb ... Unpacking python3-deprecated (1.2.11-1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../32-python3-tz_2021.1-1_all.deb ... Unpacking python3-tz (2021.1-1) ... Selecting previously unselected package python3-pandas-lib:amd64. Preparing to unpack .../33-python3-pandas-lib_1.1.5+dfsg-2_amd64.deb ... Unpacking python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../34-python3-pandas_1.1.5+dfsg-2_all.deb ... Unpacking python3-pandas (1.1.5+dfsg-2) ... Selecting previously unselected package python3-nanomath. Preparing to unpack .../35-python3-nanomath_1.2.0+ds-1_all.deb ... Unpacking python3-nanomath (1.2.0+ds-1) ... Selecting previously unselected package yanagiba. Preparing to unpack .../36-yanagiba_1.0.0-2_all.deb ... Unpacking yanagiba (1.0.0-2) ... Setting up media-types (4.0.0) ... Setting up liblcms2-2:amd64 (2.12~rc1-2) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up perl-modules-5.32 (5.32.1-4+deb11u2) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libsqlite3-0:amd64 (3.34.1-3) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u4) ... Setting up libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up readline-common (8.1-1) ... Setting up libgdbm6:amd64 (1.19-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.9.0-3+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.14-3) ... Setting up libwebpdemux2:amd64 (0.6.1-2.1+deb11u2) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up libgdbm-compat4:amd64 (1.19-2) ... Setting up libperl5.32:amd64 (5.32.1-4+deb11u2) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up perl (5.32.1-4+deb11u2) ... Setting up mailcap (3.69) ... Setting up python3.9 (3.9.2-1) ... Setting up mime-support (3.66) ... Setting up python3 (3.9.2-3) ... Setting up python3-tz (2021.1-1) ... Setting up python3-six (1.16.0-2) ... Setting up python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Setting up python3-reportlab-accel:amd64 (3.5.59-2) ... Setting up python3-wrapt (1.12.1-4+b1) ... Setting up python3-reportlab (3.5.59-2) ... Setting up python3-dateutil (2.8.1-6) ... Setting up python3-deprecated (1.2.11-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-biopython (1.78+dfsg-4) ... Setting up python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Setting up python3-pandas (1.1.5+dfsg-2) ... Setting up python3-nanomath (1.2.0+ds-1) ... Setting up yanagiba (1.0.0-2) ... Processing triggers for libc-bin (2.31-13+deb11u6) ... 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba'] 0m24.9s INFO: Running scripts post_install 0m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m24.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m25.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m25.5s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpc678s8yh to bullseye-next 0m25.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main deb http://security.debian.org bullseye-security main deb http://deb.debian.org/debian/ bullseye-updates main deb http://deb.debian.org/debian/ bullseye-proposed-updates main 0m25.5s INFO: Running scripts pre_distupgrade 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_exceptions'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_exceptions'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'update'] 0m27.4s DUMP: Get:1 http://security.debian.org bullseye-security InRelease [48.4 kB] Hit:2 http://deb.debian.org/debian bullseye InRelease Get:3 http://deb.debian.org/debian bullseye-updates InRelease [44.1 kB] Get:4 http://deb.debian.org/debian bullseye-proposed-updates InRelease [54.0 kB] Get:5 http://security.debian.org bullseye-security/main amd64 Packages [264 kB] Get:6 http://security.debian.org bullseye-security/main Translation-en [171 kB] Get:7 http://deb.debian.org/debian bullseye-updates/main amd64 Packages [18.8 kB] Get:8 http://deb.debian.org/debian bullseye-updates/main Translation-en [10.9 kB] Get:9 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages [128 kB] Get:10 http://deb.debian.org/debian bullseye-proposed-updates/main Translation-en [72.8 kB] Fetched 812 kB in 1s (899 kB/s) Reading package lists... 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'update'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-yf', 'dist-upgrade'] 0m31.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 libgnutls30 libperl5.32 libtiff5 perl perl-base perl-modules-5.32 tzdata 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 14.4 MB of archives. After this operation, 3072 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 libperl5.32 amd64 5.32.1-4+deb11u3 [4121 kB] Get:2 http://security.debian.org bullseye-security/main amd64 libc6 amd64 2.31-13+deb11u7 [2823 kB] Get:3 http://security.debian.org bullseye-security/main amd64 libc-bin amd64 2.31-13+deb11u7 [829 kB] Get:4 http://security.debian.org bullseye-security/main amd64 libtiff5 amd64 4.2.0-1+deb11u5 [290 kB] Get:5 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 perl amd64 5.32.1-4+deb11u3 [293 kB] Get:6 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 perl-base amd64 5.32.1-4+deb11u3 [1628 kB] Get:7 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 perl-modules-5.32 all 5.32.1-4+deb11u3 [2823 kB] Get:8 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 libgnutls30 amd64 3.7.1-5+deb11u4 [1340 kB] Get:9 http://deb.debian.org/debian bullseye-updates/main amd64 tzdata all 2021a-1+deb11u11 [287 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 14.4 MB in 0s (70.3 MB/s) (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 ... 12362 files and directories currently installed.) Preparing to unpack .../libperl5.32_5.32.1-4+deb11u3_amd64.deb ... Unpacking libperl5.32:amd64 (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Preparing to unpack .../perl_5.32.1-4+deb11u3_amd64.deb ... Unpacking perl (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Preparing to unpack .../perl-base_5.32.1-4+deb11u3_amd64.deb ... Unpacking perl-base (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Setting up perl-base (5.32.1-4+deb11u3) ... (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 ... 12362 files and directories currently installed.) Preparing to unpack .../perl-modules-5.32_5.32.1-4+deb11u3_all.deb ... Unpacking perl-modules-5.32 (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Preparing to unpack .../libc6_2.31-13+deb11u7_amd64.deb ... Unpacking libc6:amd64 (2.31-13+deb11u7) over (2.31-13+deb11u6) ... Setting up libc6:amd64 (2.31-13+deb11u7) ... (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 ... 12362 files and directories currently installed.) Preparing to unpack .../libc-bin_2.31-13+deb11u7_amd64.deb ... Unpacking libc-bin (2.31-13+deb11u7) over (2.31-13+deb11u6) ... Setting up libc-bin (2.31-13+deb11u7) ... (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 ... 12362 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.1-5+deb11u4_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.1-5+deb11u4) over (3.7.1-5+deb11u3) ... Setting up libgnutls30:amd64 (3.7.1-5+deb11u4) ... (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 ... 12362 files and directories currently installed.) Preparing to unpack .../tzdata_2021a-1+deb11u11_all.deb ... Unpacking tzdata (2021a-1+deb11u11) over (2021a-1+deb11u10) ... Preparing to unpack .../libtiff5_4.2.0-1+deb11u5_amd64.deb ... Unpacking libtiff5:amd64 (4.2.0-1+deb11u5) over (4.2.0-1+deb11u4) ... Setting up perl-modules-5.32 (5.32.1-4+deb11u3) ... Setting up tzdata (2021a-1+deb11u11) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Jan 11 20:02:15 UTC 2024. Universal Time is now: Thu Jan 11 20:02:15 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libperl5.32:amd64 (5.32.1-4+deb11u3) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u5) ... Setting up perl (5.32.1-4+deb11u3) ... Processing triggers for libc-bin (2.31-13+deb11u7) ... 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-yf', 'dist-upgrade'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.8s DUMP: c29a442935dca3ecc7458cec92bebc3d - 0m31.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'show', '--no-all-versions', 'yanagiba'] 0m32.0s DUMP: Package: yanagiba Version: 1.0.0-2 Installed-Size: 32 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-nanomath, python3-pandas, python3:any Description-en: filter low quality Oxford Nanopore reads basecalled with Albacore Yanagiba is used to filter short or low quality Oxford Nanopore reads which have been basecalled with Albacore. It takes fastq.gz and an Albacore summary file as input. If no Albacore summary file is provided attempt to calculate mean qscore from directly from fastq file using NanoMath. Note: Calculated quality scores appear to be lower for reads called with Metrichor, you may need to lower your minqual setting in this case. Description-md5: af57b968c50c6245e1c69de3c25cfcb8 Homepage: https://github.com/Adamtaranto/Yanagiba Section: science Priority: optional Filename: pool/main/y/yanagiba/yanagiba_1.0.0-2_all.deb Size: 6084 MD5sum: 3d886548e27fbaa62f35443b54118393 SHA256: 55c5d401ae82edceaab4b938a1a3ada394b36a943c8800a0d81d38cff8178319 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'show', '--no-all-versions', 'yanagiba'] 0m32.0s INFO: apt-cache knows about the following packages: yanagiba 0m32.0s INFO: Running scripts pre_install 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m32.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m32.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m32.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m32.1s DUMP: yanagiba: Installed: 1.0.0-2 Candidate: 1.0.0-2 Version table: *** 1.0.0-2 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m32.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m32.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba'] 0m32.6s DUMP: Reading package lists... Building dependency tree... Reading state information... yanagiba is already the newest version (1.0.0-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba'] 0m32.6s INFO: Running scripts post_install 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m32.6s INFO: Running scripts post_distupgrade 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m33.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m33.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m33.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m33.8s INFO: Running scripts pre_install 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_database-server'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_exceptions'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_extras'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m33.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m33.9s DUMP: yanagiba: Installed: 1.0.0-2 Candidate: 1.0.0-2 Version table: *** 1.0.0-2 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-cache', 'policy', 'yanagiba'] 0m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba=1.0.0-2'] 0m34.4s DUMP: Reading package lists... Building dependency tree... Reading state information... yanagiba is already the newest version (1.0.0-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m34.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', '-y', 'install', 'yanagiba=1.0.0-2'] 0m34.4s INFO: Running scripts post_install 0m34.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_install_exceptions'] 0m34.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m35.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m35.3s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m35.3s INFO: /bin converted to /usr/bin by /usr merge 0m35.3s INFO: /lib converted to /usr/lib by /usr merge 0m35.3s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m35.3s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m35.3s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m35.3s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m35.3s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m35.3s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m35.3s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m35.3s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m35.3s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m35.3s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m35.3s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m35.3s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m35.3s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m35.3s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m35.3s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m35.3s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m35.3s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m35.3s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m35.3s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m35.3s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m35.3s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m35.3s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m35.3s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m35.3s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m35.3s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m35.3s INFO: /sbin converted to /usr/sbin by /usr merge 0m36.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', '-ac', '--ignore-obsolete'] 0m37.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', '-ac', '--ignore-obsolete'] 0m37.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.6s DUMP: 0.15.6 0m37.6s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.6s INFO: Running adequate version 0.15.6 now. 0m37.6s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'yanagiba'] 0m37.7s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'yanagiba'] 0m37.7s INFO: Running scripts pre_remove 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_exceptions'] 0m40.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/pre_remove_exceptions'] 0m40.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m40.7s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblas3:amd64 libblas3 3.9.0-3+deb11u1 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b2 install ok installed libbsd0:amd64 libbsd0 0.11.3-1+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u7 install ok installed libc6:amd64 libc6 2.31-13+deb11u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libdeflate0:amd64 libdeflate0 1.7-1 install ok installed libexpat1:amd64 libexpat1 2.2.10-2+deb11u5 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libfreetype6:amd64 libfreetype6 2.10.4+dfsg-1+deb11u1 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.19-2 install ok installed libgdbm6:amd64 libgdbm6 1.19-2 install ok installed libgfortran5:amd64 libgfortran5 10.2.1-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.0.6-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblapack3:amd64 liblapack3 3.9.0-3+deb11u1 install ok installed liblcms2-2:amd64 liblcms2-2 2.12~rc1-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmd0:amd64 libmd0 1.0.3-3 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libncursesw6:amd64 libncursesw6 6.2+20201114-2+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libperl5.32:amd64 libperl5.32 5.32.1-4+deb11u3 install ok installed libpng16-16:amd64 libpng16-16 1.6.37-3 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.9.2-3 install ok installed libpython3.9-minimal:amd64 libpython3.9-minimal 3.9.2-1 install ok installed libpython3.9-stdlib:amd64 libpython3.9-stdlib 3.9.2-1 install ok installed libquadmath0:amd64 libquadmath0 10.2.1-6 install ok installed libreadline8:amd64 libreadline8 8.1-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.34.1-3 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtiff5:amd64 libtiff5 4.2.0-1+deb11u5 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2.1+deb11u2 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2.1+deb11u2 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2.1+deb11u2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb1:amd64 libxcb1 1.14-3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mailcap mailcap 3.69 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed media-types media-types 4.0.0 install ok installed mime-support mime-support 3.66 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl perl 5.32.1-4+deb11u3 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.1-4+deb11u3 install ok installed python3 python3 3.9.2-3 install ok installed python3-biopython python3-biopython 1.78+dfsg-4 install ok installed python3-dateutil python3-dateutil 2.8.1-6 install ok installed python3-deprecated python3-deprecated 1.2.11-1 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3-nanomath python3-nanomath 1.2.0+ds-1 install ok installed python3-numpy python3-numpy 1:1.19.5-1 install ok installed python3-pandas python3-pandas 1.1.5+dfsg-2 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 1.1.5+dfsg-2 install ok installed python3-pil:amd64 python3-pil 8.1.2+dfsg-0.3+deb11u1 install ok installed python3-pkg-resources python3-pkg-resources 52.0.0-4 install ok installed python3-reportlab python3-reportlab 3.5.59-2 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.5.59-2 install ok installed python3-six python3-six 1.16.0-2 install ok installed python3-tz python3-tz 2021.1-1 install ok installed python3-wrapt python3-wrapt 1.12.1-4+b1 install ok installed python3.9 python3.9 3.9.2-1 install ok installed python3.9-minimal python3.9-minimal 3.9.2-1 install ok installed readline-common readline-common 8.1-1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u11 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed yanagiba yanagiba 1.0.0-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m40.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m40.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'remove', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'mailcap', 'media-types', 'mime-support', 'perl', 'perl-modules-5.32', 'python3', 'python3-biopython', 'python3-dateutil', 'python3-deprecated', 'python3-minimal', 'python3-nanomath', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-tz', 'python3-wrapt', 'python3.9', 'python3.9-minimal', 'readline-common', 'yanagiba'] 0m44.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libblas3 libbrotli1 libbsd0 libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 libmd0 libmpdec3 libncursesw6 libperl5.32 libpng16-16 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 mailcap media-types mime-support perl perl-modules-5.32 python3 python3-biopython python3-dateutil python3-deprecated python3-minimal python3-nanomath python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-reportlab python3-reportlab-accel python3-six python3-tz python3-wrapt python3.9 python3.9-minimal readline-common yanagiba 0 upgraded, 0 newly installed, 57 to remove and 0 not upgraded. After this operation, 149 MB disk space will be freed. (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 ... 12362 files and directories currently installed.) Removing yanagiba (1.0.0-2) ... Removing python3-nanomath (1.2.0+ds-1) ... Removing python3-biopython (1.78+dfsg-4) ... Removing python3-pandas (1.1.5+dfsg-2) ... Removing python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Removing python3-numpy (1:1.19.5-1) ... Removing liblapack3:amd64 (3.9.0-3+deb11u1) ... Removing libblas3:amd64 (3.9.0-3+deb11u1) ... Removing python3-reportlab (3.5.59-2) ... Removing python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Removing libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Removing libbrotli1:amd64 (1.0.9-2+b2) ... Removing libxcb1:amd64 (1.14-3) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.3-1+deb11u1) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing libdeflate0:amd64 (1.7-1) ... Removing python3-deprecated (1.2.11-1) ... Removing python3-wrapt (1.12.1-4+b1) ... Removing python3-dateutil (2.8.1-6) ... Removing python3-six (1.16.0-2) ... Removing python3-reportlab-accel:amd64 (3.5.59-2) ... Removing python3-pkg-resources (52.0.0-4) ... Removing mime-support (3.66) ... Removing mailcap (3.69) ... Removing perl (5.32.1-4+deb11u3) ... Removing libperl5.32:amd64 (5.32.1-4+deb11u3) ... Removing libgdbm-compat4:amd64 (1.19-2) ... Removing libgdbm6:amd64 (1.19-2) ... Removing libgfortran5:amd64 (10.2.1-6) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.0.6-4) ... Removing liblcms2-2:amd64 (2.12~rc1-2) ... Removing libmd0:amd64 (1.0.3-3) ... Removing libpng16-16:amd64 (1.6.37-3) ... Removing libquadmath0:amd64 (10.2.1-6) ... Removing libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Removing libwebpdemux2:amd64 (0.6.1-2.1+deb11u2) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing perl-modules-5.32 (5.32.1-4+deb11u3) ... Removing python3-tz (2021.1-1) ... Removing python3 (3.9.2-3) ... Removing python3-minimal (3.9.2-3) ... Removing python3.9 (3.9.2-1) ... Removing python3.9-minimal (3.9.2-1) ... Removing libexpat1:amd64 (2.2.10-2+deb11u5) ... Removing libpython3-stdlib:amd64 (3.9.2-3) ... Removing libpython3.9-stdlib:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec3:amd64 (2.5.1-1) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libpython3.9-minimal:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.1-1) ... Removing libsqlite3-0:amd64 (3.34.1-3) ... Removing media-types (4.0.0) ... Removing readline-common (8.1-1) ... Processing triggers for libc-bin (2.31-13+deb11u7) ... 0m44.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'remove', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'mailcap', 'media-types', 'mime-support', 'perl', 'perl-modules-5.32', 'python3', 'python3-biopython', 'python3-dateutil', 'python3-deprecated', 'python3-minimal', 'python3-nanomath', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-tz', 'python3-wrapt', 'python3.9', 'python3.9-minimal', 'readline-common', 'yanagiba'] 0m44.0s INFO: Running scripts post_remove 0m44.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_remove_exceptions'] 0m44.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_remove_exceptions'] 0m44.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'mailcap', 'media-types', 'mime-support', 'perl', 'perl-modules-5.32', 'python3', 'python3-biopython', 'python3-dateutil', 'python3-deprecated', 'python3-minimal', 'python3-nanomath', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-tz', 'python3-wrapt', 'python3.9', 'python3.9-minimal', 'readline-common'] 0m44.1s DUMP: dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libperl5.32 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed (Reading database ... 6673 files and directories currently installed.) Purging configuration files for libpython3.9-minimal:amd64 (3.9.2-1) ... dpkg: warning: ignoring request to remove libpython3.9-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed Purging configuration files for mailcap (3.69) ... Purging configuration files for media-types (4.0.0) ... dpkg: warning: ignoring request to remove mime-support which isn't installed Purging configuration files for perl (5.32.1-4+deb11u3) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed Purging configuration files for python3 (3.9.2-3) ... dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-deprecated which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-nanomath which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3-wrapt which isn't installed dpkg: warning: ignoring request to remove python3.9 which isn't installed Purging configuration files for python3.9-minimal (3.9.2-1) ... Purging configuration files for readline-common (8.1-1) ... 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'mailcap', 'media-types', 'mime-support', 'perl', 'perl-modules-5.32', 'python3', 'python3-biopython', 'python3-dateutil', 'python3-deprecated', 'python3-minimal', 'python3-nanomath', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-tz', 'python3-wrapt', 'python3.9', 'python3.9-minimal', 'readline-common'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', 'yanagiba'] 0m44.1s DUMP: dpkg: warning: ignoring request to remove yanagiba which isn't installed 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', 'yanagiba'] 0m44.1s INFO: Running scripts post_purge 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_purge_exceptions'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_purge_exceptions'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', '--pending'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--purge', '--pending'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--remove', '--pending'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg', '--remove', '--pending'] 0m44.1s INFO: Running scripts post_test 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_test_exceptions'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'tmp/scripts/post_test_exceptions'] 0m44.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m44.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-divert', '--list'] 0m44.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'dpkg-divert', '--list'] 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'clean'] 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpc678s8yh', 'apt-get', 'clean'] 0m44.5s DEBUG: Recording chroot state 0m45.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/shm'] 0m45.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/shm'] 0m45.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/console'] 0m45.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/console'] 0m45.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/ptmx'] 0m45.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/ptmx'] 0m45.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts'] 0m45.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/dev/pts'] 0m45.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/proc'] 0m45.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpc678s8yh/proc'] 0m45.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m45.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpc678s8yh'] 0m45.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpc678s8yh 0m45.6s INFO: PASS: Upgrading between Debian distributions. 0m45.6s INFO: PASS: All tests. 0m45.6s INFO: piuparts run ends. ret=0 End: 2024-01-11 20:02:29 GMT