Start: 2024-10-09 17:32:19 GMT [bullseye] Package: iva Version: 1.0.9+ds-11 Installed-Size: 8765 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 1.6), python3-networkx, python3-pysam, python3:any, perl:any, kmc, mummer, smalt, samtools, python3-numpy, default-jre-headless Recommends: r-base-core, bioperl, trimmomatic Description: iterative virus sequence assembler Homepage: https://github.com/sanger-pathogens/iva Description-md5: 698e26411c0dbe5917f816e7b7229be9 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/i/iva/iva_1.0.9+ds-11_amd64.deb Size: 8578708 MD5sum: 513e2e9c47ca6d1804645c4851efa742 SHA256: 2334df55b94c72173f454c5f4c9c2c87996342ee787ad7f556fc5bbf6ee18b51 [bullseye-next] Package: iva Version: 1.0.9+ds-11 Installed-Size: 8765 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 1.6), python3-networkx, python3-pysam, python3:any, perl:any, kmc, mummer, smalt, samtools, python3-numpy, default-jre-headless Recommends: r-base-core, bioperl, trimmomatic Description: iterative virus sequence assembler Homepage: https://github.com/sanger-pathogens/iva Description-md5: 698e26411c0dbe5917f816e7b7229be9 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/i/iva/iva_1.0.9+ds-11_amd64.deb Size: 8578708 MD5sum: 513e2e9c47ca6d1804645c4851efa742 SHA256: 2334df55b94c72173f454c5f4c9c2c87996342ee787ad7f556fc5bbf6ee18b51 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 iva=1.0.9+ds-11 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 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 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 iva=1.0.9+ds-11 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpdd4de94k 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdd4de94k 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '--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/tmpdd4de94k', '--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/tmpdd4de94k/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/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/tmpdd4de94k/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/tmpdd4de94k/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/ptmx'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/ptmx'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/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/tmpdd4de94k/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'update'] 0m1.3s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'update'] 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-yf', 'dist-upgrade'] 0m1.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-yf', 'dist-upgrade'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s DUMP: f58ca9ba0b3223edf5b7797c101a5448 - 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.1s INFO: Running scripts post_setup 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '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/tmpdd4de94k', 'tmp/scripts/post_setup_forbid_home'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.4s 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' 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_minimize'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_minimize'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_zz_backports'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_setup_zz_backports'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '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+deb11u11 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+deb11u2 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+deb11u2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u11 install ok installed libc6:amd64 libc6 2.31-13+deb11u11 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+deb11u5 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+deb11u5 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+deb11u5 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u5 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u5 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+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed 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+deb11u2 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+deb11u5 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+deb11u5 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u2 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+deb11u2 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+deb11u2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '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/tmpdd4de94k'] 0m4.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m4.0s INFO: Running scripts is_testable 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/is_testable_uninstallable'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/is_testable_uninstallable'] 0m4.1s INFO: Running scripts pre_test 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_test_exceptions'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_test_exceptions'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_test_root_password'] 0m4.1s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_test_root_password'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'show', '--no-all-versions', 'iva'] 0m4.3s DUMP: Package: iva Version: 1.0.9+ds-11 Installed-Size: 8765 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 1.6), python3-networkx, python3-pysam, python3:any, perl:any, kmc, mummer, smalt, samtools, python3-numpy, default-jre-headless Recommends: r-base-core, bioperl, trimmomatic Description-en: iterative virus sequence assembler IVA is a de novo assembler designed to assemble virus genomes that have no repeat sequences, using Illumina read pairs sequenced from mixed populations at extremely high depth. . IVA's main algorithm works by iteratively extending contigs using aligned read pairs. Its input can be just read pairs, or additionally you can provide an existing set of contigs to be extended. Alternatively, it can take reads together with a reference sequence. Description-md5: 698e26411c0dbe5917f816e7b7229be9 Homepage: https://github.com/sanger-pathogens/iva Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/i/iva/iva_1.0.9+ds-11_amd64.deb Size: 8578708 MD5sum: 513e2e9c47ca6d1804645c4851efa742 SHA256: 2334df55b94c72173f454c5f4c9c2c87996342ee787ad7f556fc5bbf6ee18b51 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'show', '--no-all-versions', 'iva'] 0m4.3s INFO: apt-cache knows about the following packages: iva 0m4.3s INFO: Running scripts pre_install 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m4.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.11,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m4.5s DUMP: iva: Installed: (none) Candidate: 1.0.9+ds-11 Version table: 1.0.9+ds-11 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva'] 0m28.2s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates ca-certificates-java default-jre-headless fastaq fontconfig-config fonts-dejavu-core gawk java-common kmc libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbambamc0 libblas3 libbrotli1 libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhts3 libjpeg62-turbo liblapack3 liblcms2-2 libldap-2.4-2 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libnspr4 libnss3 libpcsclite1 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 media-types mummer openjdk-11-jre-headless openssl perl perl-modules-5.32 python3 python3-decorator python3-minimal python3-networkx python3-numpy python3-pkg-resources python3-pysam python3.9 python3.9-minimal readline-common samtools sensible-utils smalt ucf Suggested packages: default-jre gawk-doc libasound2-plugins alsa-utils cups-common gdbm-l10n liblcms2-utils pcscd libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python-networkx-doc gcc gfortran python-numpy-doc python3-dev python3-numpy-dbg python3-pytest python3-setuptools python3.9-venv python3.9-doc binutils binfmt-support readline-doc cwltool Recommended packages: r-base-core bioperl trimmomatic alsa-ucm-conf alsa-topology-conf dbus libglib2.0-data shared-mime-info xdg-user-dirs libldap-common libgpm2 publicsuffix libsasl2-modules netbase python3-gdal python3-matplotlib python3-pydot python3-pygraphviz python3-scipy python3-yaml The following NEW packages will be installed: ca-certificates ca-certificates-java default-jre-headless fastaq fontconfig-config fonts-dejavu-core gawk iva java-common kmc libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbambamc0 libblas3 libbrotli1 libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhts3 libjpeg62-turbo liblapack3 liblcms2-2 libldap-2.4-2 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libnspr4 libnss3 libpcsclite1 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 media-types mummer openjdk-11-jre-headless openssl perl perl-modules-5.32 python3 python3-decorator python3-minimal python3-networkx python3-numpy python3-pkg-resources python3-pysam python3.9 python3.9-minimal readline-common samtools sensible-utils smalt ucf 0 upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 85.4 MB of archives. After this operation, 335 MB of additional disk space will be used. 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1.11-4 [378 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2+deb11u2 [102 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 samtools amd64 1.11-1 [545 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 fastaq all 3.17.0-3 [47.8 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 python3-decorator all 4.4.2-2 [15.8 kB] Get:67 http://deb.debian.org/debian bullseye/main amd64 python3-networkx all 2.5+ds-2 [900 kB] Get:68 http://deb.debian.org/debian bullseye/main amd64 python3-pysam amd64 0.15.4+ds-3+b2 [1536 kB] Get:69 http://deb.debian.org/debian bullseye/main amd64 kmc amd64 3.1.1+dfsg-3+b2 [882 kB] Get:70 http://deb.debian.org/debian bullseye/main amd64 mummer amd64 3.23+dfsg-7 [664 kB] Get:71 http://deb.debian.org/debian bullseye/main amd64 libbambamc0 amd64 0.0.50-4 [37.3 kB] Get:72 http://deb.debian.org/debian bullseye/main amd64 smalt amd64 0.7.6-9 [113 kB] Get:73 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:74 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:75 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:76 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:77 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get:78 http://deb.debian.org/debian bullseye/main amd64 iva amd64 1.0.9+ds-11 [8579 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 85.4 MB in 1s (65.2 MB/s) Selecting previously unselected package perl-modules-5.32. 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(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 ... 9572 files and directories currently installed.) Preparing to unpack .../00-python3_3.9.2-3_amd64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package openssl. Preparing to unpack .../02-openssl_1.1.1w-0+deb11u1_amd64.deb ... Unpacking openssl (1.1.1w-0+deb11u1) ... 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Unpacking libdbus-1-3:amd64 (1.12.28-0+deb11u1) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../09-libavahi-client3_0.8-5+deb11u2_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-5+deb11u2) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../10-libcups2_2.3.3op2-3+deb11u8_amd64.deb ... Unpacking libcups2:amd64 (2.3.3op2-3+deb11u8) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../11-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../12-libpng16-16_1.6.37-3_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.37-3) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../13-libfreetype6_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package fonts-dejavu-core. 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Unpacking libharfbuzz0b:amd64 (2.7.4-1) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../26-libpcsclite1_1.9.1-1_amd64.deb ... Unpacking libpcsclite1:amd64 (1.9.1-1) ... Selecting previously unselected package openjdk-11-jre-headless:amd64. Preparing to unpack .../27-openjdk-11-jre-headless_11.0.24+8-2~deb11u1_amd64.deb ... Unpacking openjdk-11-jre-headless:amd64 (11.0.24+8-2~deb11u1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../28-default-jre-headless_2%3a1.11-72_amd64.deb ... Unpacking default-jre-headless (2:1.11-72) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../29-ca-certificates-java_20190909+deb11u1_all.deb ... Unpacking ca-certificates-java (20190909+deb11u1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../30-python3-pkg-resources_52.0.0-4_all.deb ... Unpacking python3-pkg-resources (52.0.0-4) ... 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Unpacking libgfortran5:amd64 (10.2.1-6) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../54-liblapack3_3.9.0-3+deb11u1_amd64.deb ... Unpacking liblapack3:amd64 (3.9.0-3+deb11u1) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../55-python3-numpy_1%3a1.19.5-1_amd64.deb ... Unpacking python3-numpy (1:1.19.5-1) ... Selecting previously unselected package iva. Preparing to unpack .../56-iva_1.0.9+ds-11_amd64.deb ... Unpacking iva (1.0.9+ds-11) ... Setting up media-types (4.0.0) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up liblcms2-2:amd64 (2.12~rc1-2) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up java-common (0.72) ... Setting up gawk (1:5.1.0-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1+deb11u4) ... No schema files found: doing nothing. Setting up perl-modules-5.32 (5.32.1-4+deb11u3) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libsqlite3-0:amd64 (3.34.1-3) ... Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libasound2-data (1.2.4-1.1) ... 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 libnspr4:amd64 (2:4.29-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libavahi-common-data:amd64 (0.8-5+deb11u2) ... Setting up libncurses6:amd64 (6.2+20201114-2+deb11u2) ... Setting up libdbus-1-3:amd64 (1.12.28-0+deb11u1) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libbambamc0 (0.0.50-4) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libpcsclite1:amd64 (1.9.1-1) ... 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 sensible-utils (0.0.14) ... Setting up libasound2:amd64 (1.2.4-1.1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libssh2-1:amd64 (1.9.0-2+deb11u1) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up kmc (3.1.1+dfsg-3+b2) ... 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 smalt (0.7.6-9) ... 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 libavahi-common3:amd64 (0.8-5+deb11u2) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u13) ... Setting up libnss3:amd64 (2:3.61-1+deb11u3) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. 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 libharfbuzz0b:amd64 (2.7.4-1) ... Setting up libavahi-client3:amd64 (0.8-5+deb11u2) ... Setting up python3.9 (3.9.2-1) ... Setting up libhts3:amd64 (1.11-4) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up python3 (3.9.2-3) ... Setting up samtools (1.11-1) ... Setting up python3-decorator (4.4.2-2) ... Setting up perl (5.32.1-4+deb11u3) ... Setting up libcups2:amd64 (2.3.3op2-3+deb11u8) ... Setting up mummer (3.23+dfsg-7) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up fastaq (3.17.0-3) ... Setting up python3-networkx (2.5+ds-2) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up openjdk-11-jre-headless:amd64 (11.0.24+8-2~deb11u1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up ca-certificates-java (20190909+deb11u1) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Setting up default-jre-headless (2:1.11-72) ... Setting up iva (1.0.9+ds-11) ... Processing triggers for libc-bin (2.31-13+deb11u11) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva'] 0m28.2s INFO: Running scripts post_install 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m28.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m28.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m28.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpdd4de94k to bullseye-next 0m28.9s 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 0m28.9s INFO: Running scripts pre_distupgrade 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'update'] 0m31.0s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Get:2 http://security.debian.org bullseye-security InRelease [27.2 kB] 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 [301 kB] Get:6 http://security.debian.org bullseye-security/main Translation-en [194 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] Fetched 650 kB in 1s (892 kB/s) Reading package lists... 0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'update'] 0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-yf', 'dist-upgrade'] 0m37.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: e2fsprogs libcom-err2 libcups2 libexpat1 libext2fs2 libgnutls30 libnghttp2-14 libsqlite3-0 libss2 libsystemd0 libudev1 logsave python3-pkg-resources 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4498 kB of archives. After this operation, 4096 B of additional disk space will be used. Get:1 http://security.debian.org bullseye-security/main amd64 libsystemd0 amd64 247.3-7+deb11u6 [377 kB] Get:2 http://security.debian.org bullseye-security/main amd64 logsave amd64 1.46.2-2+deb11u1 [75.0 kB] Get:3 http://security.debian.org bullseye-security/main amd64 libext2fs2 amd64 1.46.2-2+deb11u1 [257 kB] Get:4 http://security.debian.org bullseye-security/main amd64 e2fsprogs amd64 1.46.2-2+deb11u1 [614 kB] Get:5 http://security.debian.org bullseye-security/main amd64 libcom-err2 amd64 1.46.2-2+deb11u1 [74.3 kB] Get:6 http://security.debian.org bullseye-security/main amd64 libgnutls30 amd64 3.7.1-5+deb11u6 [1340 kB] Get:7 http://security.debian.org bullseye-security/main amd64 libudev1 amd64 247.3-7+deb11u6 [169 kB] Get:8 http://security.debian.org bullseye-security/main amd64 libcups2 amd64 2.3.3op2-3+deb11u9 [351 kB] Get:9 http://security.debian.org bullseye-security/main amd64 libexpat1 amd64 2.2.10-2+deb11u6 [99.0 kB] Get:10 http://security.debian.org bullseye-security/main amd64 libnghttp2-14 amd64 1.43.0-1+deb11u2 [77.0 kB] Get:11 http://security.debian.org bullseye-security/main amd64 libsqlite3-0 amd64 3.34.1-3+deb11u1 [797 kB] Get:12 http://security.debian.org bullseye-security/main amd64 libss2 amd64 1.46.2-2+deb11u1 [78.9 kB] Get:13 http://security.debian.org bullseye-security/main amd64 python3-pkg-resources all 52.0.0-4+deb11u1 [190 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4498 kB in 0s (11.8 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12469 files and directories currently installed.) Preparing to unpack .../libsystemd0_247.3-7+deb11u6_amd64.deb ... Unpacking libsystemd0:amd64 (247.3-7+deb11u6) over (247.3-7+deb11u5) ... Setting up libsystemd0:amd64 (247.3-7+deb11u6) ... (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 ... 12469 files and directories currently installed.) Preparing to unpack .../logsave_1.46.2-2+deb11u1_amd64.deb ... Unpacking logsave (1.46.2-2+deb11u1) over (1.46.2-2) ... Preparing to unpack .../libext2fs2_1.46.2-2+deb11u1_amd64.deb ... Unpacking libext2fs2:amd64 (1.46.2-2+deb11u1) over (1.46.2-2) ... Setting up libext2fs2:amd64 (1.46.2-2+deb11u1) ... (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 ... 12469 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.46.2-2+deb11u1_amd64.deb ... Unpacking e2fsprogs (1.46.2-2+deb11u1) over (1.46.2-2) ... Preparing to unpack .../libcom-err2_1.46.2-2+deb11u1_amd64.deb ... Unpacking libcom-err2:amd64 (1.46.2-2+deb11u1) over (1.46.2-2) ... Setting up libcom-err2:amd64 (1.46.2-2+deb11u1) ... (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 ... 12469 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.1-5+deb11u6_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.1-5+deb11u6) over (3.7.1-5+deb11u5) ... Setting up libgnutls30:amd64 (3.7.1-5+deb11u6) ... (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 ... 12469 files and directories currently installed.) Preparing to unpack .../libudev1_247.3-7+deb11u6_amd64.deb ... Unpacking libudev1:amd64 (247.3-7+deb11u6) over (247.3-7+deb11u5) ... Setting up libudev1:amd64 (247.3-7+deb11u6) ... (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 ... 12469 files and directories currently installed.) Preparing to unpack .../0-libcups2_2.3.3op2-3+deb11u9_amd64.deb ... Unpacking libcups2:amd64 (2.3.3op2-3+deb11u9) over (2.3.3op2-3+deb11u8) ... Preparing to unpack .../1-libexpat1_2.2.10-2+deb11u6_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2+deb11u6) over (2.2.10-2+deb11u5) ... Preparing to unpack .../2-libnghttp2-14_1.43.0-1+deb11u2_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.43.0-1+deb11u2) over (1.43.0-1+deb11u1) ... Preparing to unpack .../3-libsqlite3-0_3.34.1-3+deb11u1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.34.1-3+deb11u1) over (3.34.1-3) ... Preparing to unpack .../4-libss2_1.46.2-2+deb11u1_amd64.deb ... Unpacking libss2:amd64 (1.46.2-2+deb11u1) over (1.46.2-2) ... Preparing to unpack .../5-python3-pkg-resources_52.0.0-4+deb11u1_all.deb ... Unpacking python3-pkg-resources (52.0.0-4+deb11u1) over (52.0.0-4) ... Setting up python3-pkg-resources (52.0.0-4+deb11u1) ... Setting up libexpat1:amd64 (2.2.10-2+deb11u6) ... Setting up libsqlite3-0:amd64 (3.34.1-3+deb11u1) ... Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u2) ... Setting up libss2:amd64 (1.46.2-2+deb11u1) ... Setting up logsave (1.46.2-2+deb11u1) ... Setting up libcups2:amd64 (2.3.3op2-3+deb11u9) ... Setting up e2fsprogs (1.46.2-2+deb11u1) ... Processing triggers for libc-bin (2.31-13+deb11u11) ... 0m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-yf', 'dist-upgrade'] 0m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.1s DUMP: b40e1ef626f4771f3ac959874860074b - 0m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'show', '--no-all-versions', 'iva'] 0m38.4s DUMP: Package: iva Version: 1.0.9+ds-11 Installed-Size: 8765 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 1.6), python3-networkx, python3-pysam, python3:any, perl:any, kmc, mummer, smalt, samtools, python3-numpy, default-jre-headless Recommends: r-base-core, bioperl, trimmomatic Description-en: iterative virus sequence assembler IVA is a de novo assembler designed to assemble virus genomes that have no repeat sequences, using Illumina read pairs sequenced from mixed populations at extremely high depth. . IVA's main algorithm works by iteratively extending contigs using aligned read pairs. Its input can be just read pairs, or additionally you can provide an existing set of contigs to be extended. Alternatively, it can take reads together with a reference sequence. Description-md5: 698e26411c0dbe5917f816e7b7229be9 Homepage: https://github.com/sanger-pathogens/iva Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/i/iva/iva_1.0.9+ds-11_amd64.deb Size: 8578708 MD5sum: 513e2e9c47ca6d1804645c4851efa742 SHA256: 2334df55b94c72173f454c5f4c9c2c87996342ee787ad7f556fc5bbf6ee18b51 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'show', '--no-all-versions', 'iva'] 0m38.4s INFO: apt-cache knows about the following packages: iva 0m38.4s INFO: Running scripts pre_install 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m38.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 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=11.11,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m38.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m38.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m39.1s DUMP: iva: Installed: 1.0.9+ds-11 Candidate: 1.0.9+ds-11 Version table: *** 1.0.9+ds-11 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva'] 0m39.6s DUMP: Reading package lists... Building dependency tree... Reading state information... iva is already the newest version (1.0.9+ds-11). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva'] 0m39.6s INFO: Running scripts post_install 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m39.6s INFO: Running scripts post_distupgrade 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m41.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m41.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m42.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m42.4s INFO: Running scripts pre_install 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_database-server'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_exceptions'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_extras'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m42.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 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=11.11,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m42.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy'] 0m42.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m42.6s DUMP: iva: Installed: 1.0.9+ds-11 Candidate: 1.0.9+ds-11 Version table: *** 1.0.9+ds-11 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-cache', 'policy', 'iva'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva=1.0.9+ds-11'] 0m43.0s DUMP: Reading package lists... Building dependency tree... Reading state information... iva is already the newest version (1.0.9+ds-11). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m43.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', '-y', 'install', 'iva=1.0.9+ds-11'] 0m43.0s INFO: Running scripts post_install 0m43.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m43.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_install_exceptions'] 0m43.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m43.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m44.1s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m44.1s INFO: /bin converted to /usr/bin by /usr merge 0m44.1s INFO: /lib converted to /usr/lib by /usr merge 0m44.1s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m44.1s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m44.1s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m44.1s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m44.1s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m44.1s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m44.1s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m44.1s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m44.1s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m44.1s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m44.1s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m44.1s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m44.1s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m44.1s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m44.1s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m44.1s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m44.1s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m44.1s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m44.1s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m44.1s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m44.1s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m44.1s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m44.1s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m44.1s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m44.1s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m44.1s INFO: /sbin converted to /usr/sbin by /usr merge 0m45.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '-ac', '--ignore-obsolete'] 0m46.8s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', '-ac', '--ignore-obsolete'] 0m46.8s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m46.8s DUMP: 0.15.6 0m46.8s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m46.8s INFO: Running adequate version 0.15.6 now. 0m46.8s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'iva'] 0m47.1s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'iva'] 0m47.1s INFO: Running scripts pre_remove 0m47.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m47.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m47.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m47.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m47.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m50.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m50.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m50.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m50.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_exceptions'] 0m50.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/pre_remove_exceptions'] 0m50.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m50.8s 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+deb11u11 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+deb11u2 install ok installed ca-certificates ca-certificates 20210119 install ok installed ca-certificates-java ca-certificates-java 20190909+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 default-jre-headless default-jre-headless 2:1.11-72 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+deb11u1 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-dejavu-core fonts-dejavu-core 2.37-2 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 iva iva 1.0.9+ds-11 install ok installed java-common java-common 0.72 install ok installed kmc kmc 3.1.1+dfsg-3+b2 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 libasound2:amd64 libasound2 1.2.4-1.1 install ok installed libasound2-data libasound2-data 1.2.4-1.1 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 libavahi-client3:amd64 libavahi-client3 0.8-5+deb11u2 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-5+deb11u2 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-5+deb11u2 install ok installed libbambamc0 libbambamc0 0.0.50-4 install ok installed libblas3:amd64 libblas3 3.9.0-3+deb11u1 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u2 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u11 install ok installed libc6:amd64 libc6 2.31-13+deb11u11 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+deb11u1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libcups2:amd64 libcups2 2.3.3op2-3+deb11u9 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.74.0-1.3+deb11u13 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.12.28-0+deb11u1 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+deb11u6 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2+deb11u1 install ok installed libffi7:amd64 libffi7 3.3-6 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 libglib2.0-0:amd64 libglib2.0-0 2.66.8-1+deb11u4 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u6 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u5 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.7.4-1 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 libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.0.6-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u5 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u5 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u5 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 libmount1:amd64 libmount1 2.36.1-8+deb11u2 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libmpfr6:amd64 libmpfr6 4.1.0-3 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+deb11u2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.29-1 install ok installed libnss3:amd64 libnss3 2:3.61-1+deb11u3 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 libpcsclite1:amd64 libpcsclite1 1.9.1-1 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+deb11u2 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.34.1-3+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2+deb11u1 install ok installed libssh2-1:amd64 libssh2-1 1.9.0-2+deb11u1 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+deb11u6 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+deb11u6 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u2 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+deb11u1 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed media-types media-types 4.0.0 install ok installed mount mount 2.36.1-8+deb11u2 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 openjdk-11-jre-headless:amd64 openjdk-11-jre-headless 11.0.24+8-2~deb11u1 install ok installed openssl openssl 1.1.1w-0+deb11u1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl perl 5.32.1-4+deb11u3 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.1-4+deb11u3 install ok installed python3 python3 3.9.2-3 install ok installed python3-decorator python3-decorator 4.4.2-2 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3-networkx python3-networkx 2.5+ds-2 install ok installed python3-numpy python3-numpy 1:1.19.5-1 install ok installed python3-pkg-resources python3-pkg-resources 52.0.0-4+deb11u1 install ok installed python3-pysam python3-pysam 0.15.4+ds-3+b2 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 smalt smalt 0.7.6-9 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 ucf ucf 3.0043 install ok installed util-linux util-linux 2.36.1-8+deb11u2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m50.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m50.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'remove', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'gawk', 'java-common', 'kmc', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbambamc0', 'libblas3:amd64', 'libbrotli1:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1: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', 'media-types', 'mummer', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-decorator', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-pkg-resources', 'python3-pysam', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'ucf', 'iva'] 0m54.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates ca-certificates-java default-jre-headless fastaq fontconfig-config fonts-dejavu-core gawk iva java-common kmc libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbambamc0 libblas3 libbrotli1 libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhts3 libjpeg62-turbo liblapack3 liblcms2-2 libldap-2.4-2 libmpdec3 libmpfr6 libncurses6 libncursesw6 libnghttp2-14 libnspr4 libnss3 libpcsclite1 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 media-types mummer openjdk-11-jre-headless openssl perl perl-modules-5.32 python3 python3-decorator python3-minimal python3-networkx python3-numpy python3-pkg-resources python3-pysam python3.9 python3.9-minimal readline-common samtools sensible-utils smalt ucf 0 upgraded, 0 newly installed, 78 to remove and 0 not upgraded. After this operation, 335 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 ... 12469 files and directories currently installed.) Removing iva (1.0.9+ds-11) ... Removing default-jre-headless (2:1.11-72) ... Removing fastaq (3.17.0-3) ... 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 kmc (3.1.1+dfsg-3+b2) ... Removing smalt (0.7.6-9) ... Removing libbambamc0 (0.0.50-4) ... 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 samtools (1.11-1) ... Removing python3-pysam (0.15.4+ds-3+b2) ... Removing libhts3:amd64 (1.11-4) ... Removing libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u13) ... Removing libdeflate0:amd64 (1.7-1) ... Removing python3-networkx (2.5+ds-2) ... Removing python3-pkg-resources (52.0.0-4+deb11u1) ... Removing python3-decorator (4.4.2-2) ... 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 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 libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing libpython3-stdlib:amd64 (3.9.2-3) ... Removing libpython3.9-stdlib:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec3:amd64 (2.5.1-1) ... Removing libmpfr6:amd64 (4.1.0-3) ... Removing libncurses6:amd64 (6.2+20201114-2+deb11u2) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libnghttp2-14:amd64 (1.43.0-1+deb11u2) ... 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 libquadmath0:amd64 (10.2.1-6) ... 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 libsigsegv2:amd64 (2.13-1) ... Removing libssh2-1:amd64 (1.9.0-2+deb11u1) ... Removing media-types (4.0.0) ... Removing perl-modules-5.32 (5.32.1-4+deb11u3) ... Removing readline-common (8.1-1) ... Removing openjdk-11-jre-headless:amd64 (11.0.24+8-2~deb11u1) ... Removing ca-certificates-java (20190909+deb11u1) ... Removing ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libfontconfig1:amd64 (2.13.1-4.2) ... Removing fontconfig-config (2.13.1-4.2) ... Removing fonts-dejavu-core (2.37-2) ... Removing java-common (0.72) ... Removing libasound2:amd64 (1.2.4-1.1) ... Removing libasound2-data (1.2.4-1.1) ... Removing libcups2:amd64 (2.3.3op2-3+deb11u9) ... Removing libavahi-client3:amd64 (0.8-5+deb11u2) ... Removing libavahi-common3:amd64 (0.8-5+deb11u2) ... Removing libavahi-common-data:amd64 (0.8-5+deb11u2) ... Removing libharfbuzz0b:amd64 (2.7.4-1) ... Removing libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Removing libbrotli1:amd64 (1.0.9-2+b2) ... Removing libdbus-1-3:amd64 (1.12.28-0+deb11u1) ... Removing libexpat1:amd64 (2.2.10-2+deb11u6) ... Removing libglib2.0-0:amd64 (2.66.8-1+deb11u4) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libjpeg62-turbo:amd64 (1:2.0.6-4) ... Removing liblcms2-2:amd64 (2.12~rc1-2) ... Removing libnss3:amd64 (2:3.61-1+deb11u3) ... Removing libnspr4:amd64 (2:4.29-1) ... Removing libpcsclite1:amd64 (1.9.1-1) ... Removing libpng16-16:amd64 (1.6.37-3) ... Removing libsqlite3-0:amd64 (3.34.1-3+deb11u1) ... Removing openssl (1.1.1w-0+deb11u1) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.14) ... Processing triggers for libc-bin (2.31-13+deb11u11) ... 0m54.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'remove', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'gawk', 'java-common', 'kmc', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbambamc0', 'libblas3:amd64', 'libbrotli1:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1: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', 'media-types', 'mummer', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-decorator', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-pkg-resources', 'python3-pysam', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'ucf', 'iva'] 0m54.3s INFO: Running scripts post_remove 0m54.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_remove_exceptions'] 0m54.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_remove_exceptions'] 0m54.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'gawk', 'java-common', 'kmc', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbambamc0', 'libblas3:amd64', 'libbrotli1:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1: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', 'media-types', 'mummer', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-decorator', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-pkg-resources', 'python3-pysam', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'ucf'] 0m54.9s DUMP: (Reading database ... 6740 files and directories currently installed.) Purging configuration files for ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20190909+deb11u1) ... dpkg: warning: ignoring request to remove default-jre-headless which isn't installed dpkg: warning: ignoring request to remove fastaq which isn't installed Purging configuration files for fontconfig-config (2.13.1-4.2) ... Purging configuration files for fonts-dejavu-core (2.37-2) ... Purging configuration files for gawk (1:5.1.0-1) ... Purging configuration files for java-common (0.72) ... dpkg: warning: ignoring request to remove kmc which isn't installed dpkg: warning: ignoring request to remove libasound2 which isn't installed dpkg: warning: ignoring request to remove libasound2-data which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libbambamc0 which isn't installed 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 libcups2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 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 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 Purging configuration files for libglib2.0-0:amd64 (2.66.8-1+deb11u4) ... dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 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 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 libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 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 Purging configuration files for media-types (4.0.0) ... dpkg: warning: ignoring request to remove mummer which isn't installed Purging configuration files for openjdk-11-jre-headless:amd64 (11.0.24+8-2~deb11u1) ... Purging configuration files for openssl (1.1.1w-0+deb11u1) ... Purging configuration files for perl (5.32.1-4+deb11u3) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed Purging configuration files for python3 (3.9.2-3) ... dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pysam 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 smalt which isn't installed Purging configuration files for ucf (3.0043) ... 0m54.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'gawk', 'java-common', 'kmc', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbambamc0', 'libblas3:amd64', 'libbrotli1:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libmpdec3:amd64', 'libmpfr6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1: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', 'media-types', 'mummer', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-decorator', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-pkg-resources', 'python3-pysam', 'python3.9', 'python3.9-minimal', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'ucf'] 0m54.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', 'iva'] 0m54.9s DUMP: dpkg: warning: ignoring request to remove iva which isn't installed 0m54.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', 'iva'] 0m54.9s INFO: Running scripts post_purge 0m54.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_purge_exceptions'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_purge_exceptions'] 0m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', '--pending'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--purge', '--pending'] 0m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--remove', '--pending'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg', '--remove', '--pending'] 0m55.0s INFO: Running scripts post_test 0m55.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_test_exceptions'] 0m55.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'tmp/scripts/post_test_exceptions'] 0m55.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m55.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m55.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg-divert', '--list'] 0m55.6s 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 0m55.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'dpkg-divert', '--list'] 0m55.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'clean'] 0m55.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdd4de94k', 'apt-get', 'clean'] 0m55.7s DEBUG: Recording chroot state 0m57.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/shm'] 0m57.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/shm'] 0m57.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/console'] 0m57.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/console'] 0m57.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/ptmx'] 0m57.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/ptmx'] 0m57.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/pts'] 0m57.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/dev/pts'] 0m57.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/proc'] 0m57.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdd4de94k/proc'] 0m57.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m57.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdd4de94k'] 0m57.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdd4de94k 0m57.2s INFO: PASS: Upgrading between Debian distributions. 0m57.2s INFO: PASS: All tests. 0m57.2s INFO: piuparts run ends. ret=0 End: 2024-10-09 17:33:17 GMT