Start: 2024-03-20 15:45:54 GMT [bullseye] Package: ariba Source: ariba (2.14.6+ds-1) Version: 2.14.6+ds-1+b2 Installed-Size: 20456 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.10), python3 (>= 3.9~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.6+ds-1+b2_amd64.deb Size: 1956508 MD5sum: 812917666551065237b70cea18a30bf8 SHA256: bdf34c9be56b76db56966a4c60d2577001324d15cde4d538ba7d4d2a343dee7d [bullseye-next] Package: ariba Source: ariba (2.14.6+ds-1) Version: 2.14.6+ds-1+b2 Installed-Size: 20456 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.10), python3 (>= 3.9~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.6+ds-1+b2_amd64.deb Size: 1956508 MD5sum: 812917666551065237b70cea18a30bf8 SHA256: bdf34c9be56b76db56966a4c60d2577001324d15cde4d538ba7d4d2a343dee7d 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 ariba=2.14.6+ds-1+b2 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 1.4.1~202403190841~1.4-4-g85045c69 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 ariba=2.14.6+ds-1+b2 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp4wrz4qzb 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp4wrz4qzb 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp4wrz4qzb/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'update'] 0m1.5s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'update'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s DUMP: 29fcf27583012b383113cec2bf757015 - 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s INFO: Running scripts post_setup 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_forbid_home'] 0m3.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_forbid_home'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s 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+deb11u9 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+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 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+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 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+deb11u3 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+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 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 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat 0m3.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m4.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m4.0s INFO: Running scripts is_testable 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s INFO: Running scripts pre_test 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_test_root_password'] 0m4.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_test_root_password'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m4.3s DUMP: Package: ariba Source: ariba (2.14.6+ds-1) Version: 2.14.6+ds-1+b2 Installed-Size: 20456 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.10), python3 (>= 3.9~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Description-en: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Homepage: https://github.com/sanger-pathogens/ariba Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.6+ds-1+b2_amd64.deb Size: 1956508 MD5sum: 812917666551065237b70cea18a30bf8 SHA256: bdf34c9be56b76db56966a4c60d2577001324d15cde4d538ba7d4d2a343dee7d 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m4.3s INFO: apt-cache knows about the following packages: ariba 0m4.3s INFO: Running scripts pre_install 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy'] 0m4.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m4.4s DUMP: ariba: Installed: (none) Candidate: 2.14.6+ds-1+b2 Version table: 2.14.6+ds-1+b2 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba'] 0m28.2s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: blt bowtie2 cd-hit fastaq fontconfig-config fonts-lyx gawk libblas3 libbrotli1 libbsd0 libcapnp-0.7.0 libcurl3-gnutls libdeflate0 libexpat1 libfml0 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgsl25 libgslcblas0 libhts3 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui liblapack3 liblcms2-2 libldap-2.4-2 libmd0 libminimap0 libmpdec3 libmpfr6 libmurmurhash2 libncurses6 libncursesw6 libnghttp2-14 libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libtbb2 libtcl8.6 libtiff5 libtk8.6 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 mailcap mash media-types mime-support mummer perl perl-modules-5.32 python-matplotlib-data python3 python3-biopython python3-bs4 python3-cycler python3-dateutil python3-dendropy python3-kiwisolver python3-matplotlib python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-reportlab-accel python3-six python3-soupsieve python3-tk python3.9 python3.9-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common Suggested packages: spades blt-demo bowtie2-examples gawk-doc gdbm-l10n gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-renderpm python3-psycopg2 python3-scipy raxml t-coffee wise w3-dtd-mathml python-cycler-doc dvipng ffmpeg ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-nose python3-pyqt5 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra ttf-staypuft gcc gfortran python-numpy-doc python3-dev python3-numpy-dbg python3-pytest python-pil-doc python3-pil-dbg python3-setuptools python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc tix python3-tk-dbg python3.9-venv python3.9-doc binutils binfmt-support readline-doc cwltool Recommended packages: ca-certificates javascript-common libldap-common libgpm2 publicsuffix libsasl2-modules bzip2 file xz-utils netbase python-biopython-doc ncbi-blast+ python3-chardet python3-lxml python3-olefile python3-renderpm The following NEW packages will be installed: ariba blt bowtie2 cd-hit fastaq fontconfig-config fonts-lyx gawk libblas3 libbrotli1 libbsd0 libcapnp-0.7.0 libcurl3-gnutls libdeflate0 libexpat1 libfml0 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgsl25 libgslcblas0 libhts3 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui liblapack3 liblcms2-2 libldap-2.4-2 libmd0 libminimap0 libmpdec3 libmpfr6 libmurmurhash2 libncurses6 libncursesw6 libnghttp2-14 libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libtbb2 libtcl8.6 libtiff5 libtk8.6 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 mailcap mash media-types mime-support mummer perl perl-modules-5.32 python-matplotlib-data python3 python3-biopython python3-bs4 python3-cycler python3-dateutil python3-dendropy python3-kiwisolver python3-matplotlib python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-reportlab-accel python3-six python3-soupsieve python3-tk python3.9 python3.9-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common 0 upgraded, 108 newly installed, 0 to remove and 0 not upgraded. Need to get 52.9 MB of archives. After this operation, 217 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-modules-5.32 all 5.32.1-4+deb11u3 [2823 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libgdbm6 amd64 1.19-2 [64.9 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libgdbm-compat4 amd64 1.19-2 [44.7 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libperl5.32 amd64 5.32.1-4+deb11u3 [4121 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 perl amd64 5.32.1-4+deb11u3 [293 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 libmpfr6 amd64 4.1.0-3 [2012 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 gawk amd64 1:5.1.0-1 [605 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 libncursesw6 amd64 6.2+20201114-2+deb11u2 [132 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-0 amd64 3.34.1-3 [797 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get:27 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u1 [77.2 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:34 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u11 [344 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2+deb11u2 [102 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 samtools amd64 1.11-1 [545 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 fastaq all 3.17.0-3 [47.8 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab-accel amd64 3.5.59-2 [39.1 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get:53 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python3-pil amd64 8.1.2+dfsg-0.3+deb11u1 [445 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 python3-reportlab all 3.5.59-2 [575 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 python3-biopython amd64 1.78+dfsg-4 [1402 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 python3-soupsieve all 2.2.1-1 [34.7 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 python3-bs4 all 4.9.3-1 [112 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 python3-dendropy all 4.5.1-1 [273 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery-ui all 1.12.1+dfsg-8+deb11u2 [232 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 fonts-lyx all 2.3.6-1 [205 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 ttf-bitstream-vera all 1.10-8.1 [223 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 python-matplotlib-data all 3.3.4-1 [4153 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 python3-dateutil all 2.8.1-6 [79.2 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 python3-pyparsing all 2.4.7-1 [109 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 python3-cycler all 0.10.0-3 [8084 B] Get:78 http://deb.debian.org/debian bullseye/main amd64 python3-kiwisolver amd64 1.3.1-1+b1 [55.7 kB] Get:79 http://deb.debian.org/debian bullseye/main amd64 python3-matplotlib amd64 3.3.4-1 [4163 kB] Get:80 http://deb.debian.org/debian bullseye/main amd64 mummer amd64 3.23+dfsg-7 [664 kB] Get:81 http://deb.debian.org/debian bullseye/main amd64 python3-pymummer all 0.11.0-2 [11.3 kB] Get:82 http://deb.debian.org/debian bullseye/main amd64 python3-pysam amd64 0.15.4+ds-3+b2 [1536 kB] Get:83 http://deb.debian.org/debian bullseye/main amd64 libfml0 amd64 0.1+git20190320.b499514-1+b1 [71.4 kB] Get:84 http://deb.debian.org/debian bullseye/main amd64 libminimap0 amd64 0.2-5 [22.9 kB] Get:85 http://deb.debian.org/debian bullseye/main amd64 libtbb2 amd64 2020.3-1 [161 kB] Get:86 http://deb.debian.org/debian bullseye/main amd64 bowtie2 amd64 2.4.2-2+b3 [1342 kB] Get:87 http://deb.debian.org/debian bullseye/main amd64 libgomp1 amd64 10.2.1-6 [99.9 kB] Get:88 http://deb.debian.org/debian bullseye/main amd64 cd-hit amd64 4.8.1-3 [522 kB] Get:89 http://deb.debian.org/debian bullseye/main amd64 libcapnp-0.7.0 amd64 0.7.0-7 [1048 kB] Get:90 http://deb.debian.org/debian bullseye/main amd64 libgslcblas0 amd64 2.6+dfsg-2 [102 kB] Get:91 http://deb.debian.org/debian bullseye/main amd64 libgsl25 amd64 2.6+dfsg-2 [934 kB] Get:92 http://deb.debian.org/debian bullseye/main amd64 libmurmurhash2 amd64 1.5-2 [5780 B] Get:93 http://deb.debian.org/debian bullseye/main amd64 mash amd64 2.2.2+dfsg-2 [153 kB] Get:94 http://deb.debian.org/debian bullseye/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get:95 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get:96 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1+deb11u2 [311 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1+deb11u2 [772 kB] Get:99 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:100 http://deb.debian.org/debian bullseye/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get:102 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 libtk8.6 amd64 8.6.11-2 [780 kB] Get:105 http://deb.debian.org/debian bullseye/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1 [593 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 blt amd64 2.5.3+dfsg-4.1 [14.9 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 python3-tk amd64 3.9.2-1 [101 kB] Get:108 http://deb.debian.org/debian bullseye/main amd64 ariba amd64 2.14.6+ds-1+b2 [1957 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 52.9 MB in 1s (69.0 MB/s) Selecting previously unselected package perl-modules-5.32. 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Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up libgomp1:amd64 (10.2.1-6) ... Setting up libcapnp-0.7.0:amd64 (0.7.0-7) ... Setting up libfml0:amd64 (0.1+git20190320.b499514-1+b1) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libminimap0 (0.2-5) ... 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 libx11-data (2:1.7.2-1+deb11u2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:amd64 (6.2+20201114-2+deb11u2) ... 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 mash (2.2.2+dfsg-2) ... Setting up libtcl8.6:amd64 (8.6.11+dfsg-1) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u5) ... Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Setting up python-matplotlib-data (3.3.4-1) ... Setting up libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... 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 libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u11) ... Setting up libjs-jquery-ui (1.12.1+dfsg-8+deb11u2) ... Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up libgdbm-compat4:amd64 (1.19-2) ... Setting up ucf (3.0043) ... Setting up libperl5.32:amd64 (5.32.1-4+deb11u3) ... Setting up libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Setting up python3.9 (3.9.2-1) ... Setting up libhts3:amd64 (1.11-4) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up python3 (3.9.2-3) ... Setting up samtools (1.11-1) ... Setting up python3-six (1.16.0-2) ... Setting up perl (5.32.1-4+deb11u3) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up python3-cycler (0.10.0-3) ... Setting up python3-reportlab-accel:amd64 (3.5.59-2) ... Setting up python3-kiwisolver (1.3.1-1+b1) ... Setting up mummer (3.23+dfsg-7) ... Setting up python3-dateutil (2.8.1-6) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up mailcap (3.69) ... Setting up python3-soupsieve (2.2.1-1) ... Setting up cd-hit (4.8.1-3) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up mime-support (3.66) ... Setting up libtk8.6:amd64 (8.6.11-2) ... Setting up fastaq (3.17.0-3) ... Setting up python3-bs4 (4.9.3-1) ... Setting up python3-pymummer (0.11.0-2) ... Setting up bowtie2 (2.4.2-2+b3) ... Setting up python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-reportlab (3.5.59-2) ... Setting up python3-biopython (1.78+dfsg-4) ... Setting up python3-dendropy (4.5.1-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up python3-matplotlib (3.3.4-1) ... Setting up blt (2.5.3+dfsg-4.1) ... Setting up python3-tk:amd64 (3.9.2-1) ... Setting up ariba (2.14.6+ds-1+b2) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba'] 0m28.2s INFO: Running scripts post_install 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m28.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m29.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m29.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp4wrz4qzb to bullseye-next 0m29.2s 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 0m29.2s INFO: Running scripts pre_distupgrade 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_exceptions'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_exceptions'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'update'] 0m30.8s 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 [270 kB] Get:6 http://security.debian.org bullseye-security/main Translation-en [175 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 [18.9 kB] Get:10 http://deb.debian.org/debian bullseye-proposed-updates/main Translation-en [13.8 kB] Fetched 654 kB in 1s (845 kB/s) Reading package lists... 0m30.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'update'] 0m30.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-yf', 'dist-upgrade'] 0m31.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-yf', 'dist-upgrade'] 0m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.7s DUMP: a041f177df91ea58113ece161733b4b2 - 0m31.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m31.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m32.0s DUMP: Package: ariba Source: ariba (2.14.6+ds-1) Version: 2.14.6+ds-1+b2 Installed-Size: 20456 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.10), python3 (>= 3.9~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Description-en: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Homepage: https://github.com/sanger-pathogens/ariba Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.6+ds-1+b2_amd64.deb Size: 1956508 MD5sum: 812917666551065237b70cea18a30bf8 SHA256: bdf34c9be56b76db56966a4c60d2577001324d15cde4d538ba7d4d2a343dee7d 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m32.0s INFO: apt-cache knows about the following packages: ariba 0m32.0s INFO: Running scripts pre_install 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', '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=11.9,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/tmp4wrz4qzb', 'apt-cache', 'policy'] 0m32.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m32.1s DUMP: ariba: Installed: 2.14.6+ds-1+b2 Candidate: 2.14.6+ds-1+b2 Version table: *** 2.14.6+ds-1+b2 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/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m32.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba'] 0m32.6s DUMP: Reading package lists... Building dependency tree... Reading state information... ariba is already the newest version (2.14.6+ds-1+b2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba'] 0m32.6s INFO: Running scripts post_install 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m32.6s INFO: Running scripts post_distupgrade 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_exceptions'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m33.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m33.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m34.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m34.7s INFO: Running scripts pre_install 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_database-server'] 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_exceptions'] 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_extras'] 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture'] 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m34.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m34.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy'] 0m34.8s 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=11.9,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy'] 0m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m34.8s DUMP: ariba: Installed: 2.14.6+ds-1+b2 Candidate: 2.14.6+ds-1+b2 Version table: *** 2.14.6+ds-1+b2 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m34.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-cache', 'policy', 'ariba'] 0m34.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba=2.14.6+ds-1+b2'] 0m35.3s DUMP: Reading package lists... Building dependency tree... Reading state information... ariba is already the newest version (2.14.6+ds-1+b2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', '-y', 'install', 'ariba=2.14.6+ds-1+b2'] 0m35.3s INFO: Running scripts post_install 0m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_install_exceptions'] 0m35.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m36.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m36.7s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m36.7s INFO: /bin converted to /usr/bin by /usr merge 0m36.7s INFO: /lib converted to /usr/lib by /usr merge 0m36.7s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m36.7s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m36.7s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m36.7s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m36.7s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m36.7s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m36.7s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m36.7s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m36.7s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m36.7s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m36.7s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m36.7s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m36.7s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m36.7s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m36.7s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m36.7s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m36.7s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m36.7s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m36.7s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m36.7s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m36.7s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m36.7s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m36.7s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m36.7s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m36.7s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m36.7s INFO: /sbin converted to /usr/sbin by /usr merge 0m38.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', '-ac', '--ignore-obsolete'] 0m40.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', '-ac', '--ignore-obsolete'] 0m40.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m40.1s DUMP: 0.15.6 0m40.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m40.1s INFO: Running adequate version 0.15.6 now. 0m40.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'ariba'] 0m40.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'ariba'] 0m40.2s INFO: Running scripts pre_remove 0m40.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m43.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m43.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m43.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m43.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_exceptions'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/pre_remove_exceptions'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m44.1s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed ariba ariba 2.14.6+ds-1+b2 install ok installed base-files base-files 11.1+deb11u9 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed blt blt 2.5.3+dfsg-4.1 install ok installed bowtie2 bowtie2 2.4.2-2+b3 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed cd-hit cd-hit 4.8.1-3 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 fastaq fastaq 3.17.0-3 install ok installed findutils findutils 4.8.0-1 install ok installed fontconfig-config fontconfig-config 2.13.1-4.2 install ok installed fonts-lyx fonts-lyx 2.3.6-1 install ok installed gawk gawk 1:5.1.0-1 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+deb11u8 install ok installed libc6:amd64 libc6 2.31-13+deb11u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcapnp-0.7.0:amd64 libcapnp-0.7.0 0.7.0-7 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 libcurl3-gnutls:amd64 libcurl3-gnutls 7.74.0-1.3+deb11u11 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 libfml0:amd64 libfml0 0.1+git20190320.b499514-1+b1 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.2 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 libgomp1:amd64 libgomp1 10.2.1-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgsl25:amd64 libgsl25 2.6+dfsg-2 install ok installed libgslcblas0:amd64 libgslcblas0 2.6+dfsg-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 libhts3:amd64 libhts3 1.11-4 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 libjs-jquery libjs-jquery 3.5.1+dfsg+~3.5.5-7 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-8+deb11u2 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 libldap-2.4-2:amd64 libldap-2.4-2 2.4.57+dfsg-3+deb11u1 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 libminimap0 libminimap0 0.2-5 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libmpfr6:amd64 libmpfr6 4.1.0-3 install ok installed libmurmurhash2:amd64 libmurmurhash2 1.5-2 install ok installed libncurses6:amd64 libncurses6 6.2+20201114-2+deb11u2 install ok installed libncursesw6:amd64 libncursesw6 6.2+20201114-2+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.43.0-1+deb11u1 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 libpsl5:amd64 libpsl5 0.21.0-1.2 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 librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-2.1+deb11u1 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-2.1+deb11u1 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 libsigsegv2:amd64 libsigsegv2 2.13-1 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 libssh2-1:amd64 libssh2-1 1.9.0-2 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 libtbb2:amd64 libtbb2 2020.3-1 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.11+dfsg-1 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 libtk8.6:amd64 libtk8.6 8.6.11-2 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 libx11-6:amd64 libx11-6 2:1.7.2-1+deb11u2 install ok installed libx11-data libx11-data 2:1.7.2-1+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 libxext6:amd64 libxext6 2:1.3.3-1.1 install ok installed libxft2:amd64 libxft2 2.3.2-2 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 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 mash mash 2.2.2+dfsg-2 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 mummer mummer 3.23+dfsg-7 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 python-matplotlib-data python-matplotlib-data 3.3.4-1 install ok installed python3 python3 3.9.2-3 install ok installed python3-biopython python3-biopython 1.78+dfsg-4 install ok installed python3-bs4 python3-bs4 4.9.3-1 install ok installed python3-cycler python3-cycler 0.10.0-3 install ok installed python3-dateutil python3-dateutil 2.8.1-6 install ok installed python3-dendropy python3-dendropy 4.5.1-1 install ok installed python3-kiwisolver python3-kiwisolver 1.3.1-1+b1 install ok installed python3-matplotlib python3-matplotlib 3.3.4-1 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3-numpy python3-numpy 1:1.19.5-1 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-pymummer python3-pymummer 0.11.0-2 install ok installed python3-pyparsing python3-pyparsing 2.4.7-1 install ok installed python3-pysam python3-pysam 0.15.4+ds-3+b2 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-soupsieve python3-soupsieve 2.2.1-1 install ok installed python3-tk:amd64 python3-tk 3.9.2-1 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 samtools samtools 1.11-1 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.14 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-4.1 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8.1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed ucf ucf 3.0043 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed x11-common x11-common 1:7.7+22 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'remove', 'blt', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-lyx', 'gawk', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcapnp-0.7.0:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfml0:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgsl25:amd64', 'libgslcblas0:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmd0:amd64', 'libminimap0', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'mailcap', 'mash', 'media-types', 'mime-support', 'mummer', 'perl', 'perl-modules-5.32', 'python-matplotlib-data', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-kiwisolver', 'python3-matplotlib', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-soupsieve', 'python3-tk:amd64', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'ariba'] 0m48.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ariba blt bowtie2 cd-hit fastaq fontconfig-config fonts-lyx gawk libblas3 libbrotli1 libbsd0 libcapnp-0.7.0 libcurl3-gnutls libdeflate0 libexpat1 libfml0 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgsl25 libgslcblas0 libhts3 libimagequant0 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui liblapack3 liblcms2-2 libldap-2.4-2 libmd0 libminimap0 libmpdec3 libmpfr6 libmurmurhash2 libncurses6 libncursesw6 libnghttp2-14 libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libtbb2 libtcl8.6 libtiff5 libtk8.6 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 mailcap mash media-types mime-support mummer perl perl-modules-5.32 python-matplotlib-data python3 python3-biopython python3-bs4 python3-cycler python3-dateutil python3-dendropy python3-kiwisolver python3-matplotlib python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-reportlab-accel python3-six python3-soupsieve python3-tk python3.9 python3.9-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common 0 upgraded, 0 newly installed, 108 to remove and 0 not upgraded. After this operation, 217 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 ... 14851 files and directories currently installed.) Removing ariba (2.14.6+ds-1+b2) ... Removing python3-tk:amd64 (3.9.2-1) ... Removing blt (2.5.3+dfsg-4.1) ... Removing bowtie2 (2.4.2-2+b3) ... Removing cd-hit (4.8.1-3) ... Removing python3-pymummer (0.11.0-2) ... Removing fastaq (3.17.0-3) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Removing libtk8.6:amd64 (8.6.11-2) ... Removing libxft2:amd64 (2.3.2-2) ... Removing libfontconfig1:amd64 (2.13.1-4.2) ... Removing fontconfig-config (2.13.1-4.2) ... Removing python3-matplotlib (3.3.4-1) ... Removing python-matplotlib-data (3.3.4-1) ... Removing fonts-lyx (2.3.6-1) ... Removing mummer (3.23+dfsg-7) ... Removing gawk (1:5.1.0-1) ... update-alternatives: using /usr/bin/mawk to provide /usr/bin/awk (awk) in auto mode Removing python3-biopython (1.78+dfsg-4) ... 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 samtools (1.11-1) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing mash (2.2.2+dfsg-2) ... Removing libcapnp-0.7.0:amd64 (0.7.0-7) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing python3-reportlab-accel:amd64 (3.5.59-2) ... Removing python3-bs4 (4.9.3-1) ... Removing python3-soupsieve (2.2.1-1) ... Removing python3-pysam (0.15.4+ds-3+b2) ... Removing python3-dateutil (2.8.1-6) ... Removing libfml0:amd64 (0.1+git20190320.b499514-1+b1) ... 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 libgomp1:amd64 (10.2.1-6) ... Removing libgsl25:amd64 (2.6+dfsg-2) ... Removing libgslcblas0:amd64 (2.6+dfsg-2) ... 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 libjs-jquery-ui (1.12.1+dfsg-8+deb11u2) ... Removing libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Removing liblcms2-2:amd64 (2.12~rc1-2) ... Removing libminimap0 (0.2-5) ... Removing libmpfr6:amd64 (4.1.0-3) ... Removing libmurmurhash2:amd64 (1.5-2) ... Removing libncurses6:amd64 (6.2+20201114-2+deb11u2) ... Removing libpng16-16:amd64 (1.6.37-3) ... Removing libquadmath0:amd64 (10.2.1-6) ... Removing libsigsegv2:amd64 (2.13-1) ... Removing libtbb2:amd64 (2020.3-1) ... Removing libtcl8.6:amd64 (8.6.11+dfsg-1) ... 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 libxext6:amd64 (2:1.3.3-1.1) ... Removing perl-modules-5.32 (5.32.1-4+deb11u3) ... Removing python3-cycler (0.10.0-3) ... Removing python3-dendropy (4.5.1-1) ... Removing python3-kiwisolver (1.3.1-1+b1) ... Removing python3-pkg-resources (52.0.0-4) ... Removing python3-pyparsing (2.4.7-1) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.14) ... Removing ttf-bitstream-vera (1.10-8.1) ... Removing x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libhts3:amd64 (1.11-4) ... Removing libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u11) ... Removing libbrotli1:amd64 (1.0.9-2+b2) ... Removing libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Removing libxcb1:amd64 (1.14-3) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.3-1+deb11u1) ... Removing libdeflate0:amd64 (1.7-1) ... Removing python3-six (1.16.0-2) ... 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 libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing libmd0:amd64 (1.0.3-3) ... Removing libmpdec3:amd64 (2.5.1-1) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... 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 librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libsqlite3-0:amd64 (3.34.1-3) ... Removing libssh2-1:amd64 (1.9.0-2) ... Removing libx11-data (2:1.7.2-1+deb11u2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing media-types (4.0.0) ... Removing readline-common (8.1-1) ... Processing triggers for libc-bin (2.31-13+deb11u8) ... 0m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'remove', 'blt', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-lyx', 'gawk', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcapnp-0.7.0:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfml0:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgsl25:amd64', 'libgslcblas0:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmd0:amd64', 'libminimap0', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'mailcap', 'mash', 'media-types', 'mime-support', 'mummer', 'perl', 'perl-modules-5.32', 'python-matplotlib-data', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-kiwisolver', 'python3-matplotlib', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-soupsieve', 'python3-tk:amd64', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'ariba'] 0m48.4s INFO: Running scripts post_remove 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_remove_exceptions'] 0m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_remove_exceptions'] 0m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', 'blt', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-lyx', 'gawk', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcapnp-0.7.0:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfml0:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgsl25:amd64', 'libgslcblas0:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmd0:amd64', 'libminimap0', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'mailcap', 'mash', 'media-types', 'mime-support', 'mummer', 'perl', 'perl-modules-5.32', 'python-matplotlib-data', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-kiwisolver', 'python3-matplotlib', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-soupsieve', 'python3-tk:amd64', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common'] 0m49.0s DUMP: dpkg: warning: ignoring request to remove blt which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove cd-hit which isn't installed dpkg: warning: ignoring request to remove fastaq which isn't installed (Reading database ... 6708 files and directories currently installed.) Purging configuration files for fontconfig-config (2.13.1-4.2) ... dpkg: warning: ignoring request to remove fonts-lyx which isn't installed Purging configuration files for gawk (1:5.1.0-1) ... 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 libcapnp-0.7.0 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls 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 libfml0 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 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 libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgsl25 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 which isn't installed dpkg: warning: ignoring request to remove libhts3 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 Purging configuration files for libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Purging configuration files for libjs-jquery-ui (1.12.1+dfsg-8+deb11u2) ... 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 libldap-2.4-2 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libminimap0 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmurmurhash2 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 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 libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't 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 librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsigsegv2 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libtbb2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 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 libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data 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 dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed Purging configuration files for mailcap (3.69) ... dpkg: warning: ignoring request to remove mash which isn't installed Purging configuration files for media-types (4.0.0) ... dpkg: warning: ignoring request to remove mime-support which isn't installed dpkg: warning: ignoring request to remove mummer 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 python-matplotlib-data (3.3.4-1) ... 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-bs4 which isn't installed dpkg: warning: ignoring request to remove python3-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-dendropy which isn't installed dpkg: warning: ignoring request to remove python3-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy 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-pymummer which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pysam 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-soupsieve which isn't installed dpkg: warning: ignoring request to remove python3-tk 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) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed Purging configuration files for ucf (3.0043) ... Purging configuration files for x11-common (1:7.7+22) ... 0m49.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', 'blt', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-lyx', 'gawk', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcapnp-0.7.0:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfml0:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgsl25:amd64', 'libgslcblas0:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmd0:amd64', 'libminimap0', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'mailcap', 'mash', 'media-types', 'mime-support', 'mummer', 'perl', 'perl-modules-5.32', 'python-matplotlib-data', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-kiwisolver', 'python3-matplotlib', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-six', 'python3-soupsieve', 'python3-tk:amd64', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common'] 0m49.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', 'ariba'] 0m49.1s DUMP: dpkg: warning: ignoring request to remove ariba which isn't installed 0m49.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', 'ariba'] 0m49.1s INFO: Running scripts post_purge 0m49.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_purge_exceptions'] 0m49.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_purge_exceptions'] 0m49.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', '--pending'] 0m49.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--purge', '--pending'] 0m49.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--remove', '--pending'] 0m49.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg', '--remove', '--pending'] 0m49.1s INFO: Running scripts post_test 0m49.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_test_exceptions'] 0m49.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'tmp/scripts/post_test_exceptions'] 0m49.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m49.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-divert', '--list'] 0m49.7s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'dpkg-divert', '--list'] 0m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'clean'] 0m49.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb', 'apt-get', 'clean'] 0m49.8s DEBUG: Recording chroot state 0m51.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/shm'] 0m51.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/shm'] 0m51.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/console'] 0m51.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/console'] 0m51.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/ptmx'] 0m51.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/ptmx'] 0m51.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts'] 0m51.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/dev/pts'] 0m51.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/proc'] 0m51.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb/proc'] 0m51.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m51.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4wrz4qzb'] 0m51.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp4wrz4qzb 0m51.3s INFO: PASS: Upgrading between Debian distributions. 0m51.3s INFO: PASS: All tests. 0m51.3s INFO: piuparts run ends. ret=0 End: 2024-03-20 15:46:45 GMT