Start: 2022-11-24 21:28:13 GMT [testing] Package: plasmidid Source: plasmidid (1.6.5+dfsg-1) Version: 1.6.5+dfsg-1+b1 Installed-Size: 332 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3:any, ncbi-blast+, bedtools, bowtie2, samtools, prokka, cd-hit, mash, circos Recommends: trimmomatic, spades, python3-biopython, python3-numpy, python3-pandas Description: mapping-based, assembly-assisted plasmid identification tool Homepage: https://github.com/BU-ISCIII/plasmidID Description-md5: d2e67d45c872bf3607006dab611aef29 Section: science Priority: optional Filename: pool/main/p/plasmidid/plasmidid_1.6.5+dfsg-1+b1_amd64.deb Size: 47544 MD5sum: a8e5cc17656f2791e96dcaca915aee97 SHA256: cbd4a3f1d7acd9f667848494993ea5362b35828089a42846245bf4033a150354 [sid] Package: plasmidid Version: 1.6.5+dfsg-2 Installed-Size: 331 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3:any, ncbi-blast+, bedtools, bowtie2, samtools, prokka, cd-hit, mash, circos Recommends: trimmomatic, spades, python3-biopython, python3-numpy, python3-pandas Description: mapping-based, assembly-assisted plasmid identification tool Homepage: https://github.com/BU-ISCIII/plasmidID Description-md5: d2e67d45c872bf3607006dab611aef29 Section: science Priority: optional Filename: pool/main/p/plasmidid/plasmidid_1.6.5+dfsg-2_amd64.deb Size: 47212 MD5sum: fa7b528e02d2aacb387b176a5356e052 SHA256: e0ec3f8d2467bd4f685d0c2c32b08c57c3cf170714b522094b657a1f11f9336f 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt plasmidid=1.6.5+dfsg-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt plasmidid=1.6.5+dfsg-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-19-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_pqsclg9 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_pqsclg9 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/proc'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/proc'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/ptmx'] 0m2.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/ptmx'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/console'] 0m2.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/console'] 0m2.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/shm'] 0m2.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/shm'] 0m2.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.4s DEBUG: Created policy-rc.d and chmodded it. 0m2.4s DEBUG: Created resolv.conf. 0m2.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_pqsclg9/tmp/scripts/ 0m2.4s INFO: Running scripts post_chroot_unpack 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'update'] 0m5.7s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [164 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8757 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5916 kB] Fetched 14.8 MB in 2s (5980 kB/s) Reading package lists... 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'update'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-yf', 'dist-upgrade'] 0m7.2s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: bsdutils libblkid1 libmount1 libsmartcols1 libuuid1 mount util-linux util-linux-extra 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 1961 kB of archives. After this operation, 2048 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 bsdutils amd64 1:2.38.1-3 [93.9 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libsmartcols1 amd64 2.38.1-3 [106 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 util-linux-extra amd64 2.38.1-3 [110 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 util-linux amd64 2.38.1-3 [1177 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 mount amd64 2.38.1-3 [134 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libblkid1 amd64 2.38.1-3 [147 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libmount1 amd64 2.38.1-3 [165 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libuuid1 amd64 2.38.1-3 [28.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1961 kB in 0s (30.1 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 ... 8605 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.38.1-3_amd64.deb ... Unpacking bsdutils (1:2.38.1-3) over (1:2.38.1-1.1+b1) ... Setting up bsdutils (1:2.38.1-3) ... (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 ... 8604 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.38.1-3_amd64.deb ... Unpacking libsmartcols1:amd64 (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up libsmartcols1:amd64 (2.38.1-3) ... (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 ... 8603 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.38.1-3_amd64.deb ... Unpacking util-linux-extra (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up util-linux-extra (2.38.1-3) ... (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 ... 8602 files and directories currently installed.) Preparing to unpack .../util-linux_2.38.1-3_amd64.deb ... Unpacking util-linux (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up util-linux (2.38.1-3) ... (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 ... 8600 files and directories currently installed.) Preparing to unpack .../mount_2.38.1-3_amd64.deb ... Unpacking mount (2.38.1-3) over (2.38.1-1.1+b1) ... Preparing to unpack .../libblkid1_2.38.1-3_amd64.deb ... Unpacking libblkid1:amd64 (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up libblkid1:amd64 (2.38.1-3) ... (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 ... 8597 files and directories currently installed.) Preparing to unpack .../libmount1_2.38.1-3_amd64.deb ... Unpacking libmount1:amd64 (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up libmount1:amd64 (2.38.1-3) ... (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 ... 8596 files and directories currently installed.) Preparing to unpack .../libuuid1_2.38.1-3_amd64.deb ... Unpacking libuuid1:amd64 (2.38.1-3) over (2.38.1-1.1+b1) ... Setting up libuuid1:amd64 (2.38.1-3) ... Setting up mount (2.38.1-3) ... Processing triggers for libc-bin (2.36-5) ... 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-yf', 'dist-upgrade'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.6s DUMP: 3557bf632e678190cb10a050ca4dbe6c - 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.6s INFO: Running scripts post_setup 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_dummy_users'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_forbid_home'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_minimize'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_minimize'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.4s DUMP: install ok installed apt apt 2.5.4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2-2+b1 install ok installed bsdutils bsdutils 1:2.38.1-3 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed diffutils diffutils 1:3.8-1 install ok installed dpkg dpkg 1.21.9+b1 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-9 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libblkid1:amd64 libblkid1 2.38.1-3 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-5 install ok installed libc6:amd64 libc6 2.36-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.264 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-9 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-2 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.2.7-0.1 install ok installed libmount1:amd64 libmount1 2.38.1-3 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-2 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-4 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b3 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b3 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-3 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-9 install ok installed libsystemd0:amd64 libsystemd0 252.1-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libudev1:amd64 libudev1 252.1-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-3 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-3 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-4 install ok installed perl-base perl-base 5.36.0-4 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-4 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.05-7 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022f-1 install ok installed usr-is-merged usr-is-merged 33 install ok installed usrmerge usrmerge 33 install ok installed util-linux util-linux 2.38.1-3 install ok installed util-linux-extra util-linux-extra 2.38.1-3 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-4.1 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m8.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 0m8.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 0m8.7s INFO: Running scripts is_testable 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/is_testable_uninstallable'] 0m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/is_testable_uninstallable'] 0m8.7s INFO: Running scripts pre_test 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_test_exceptions'] 0m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_test_exceptions'] 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_test_root_password'] 0m8.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m8.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_test_root_password'] 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'show', '--no-all-versions', 'plasmidid'] 0m9.0s DUMP: Package: plasmidid Source: plasmidid (1.6.5+dfsg-1) Version: 1.6.5+dfsg-1+b1 Installed-Size: 332 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3:any, ncbi-blast+, bedtools, bowtie2, samtools, prokka, cd-hit, mash, circos Recommends: trimmomatic, spades, python3-biopython, python3-numpy, python3-pandas Description-en: mapping-based, assembly-assisted plasmid identification tool PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification. . PlasmidID is a computational pipeline that maps Illumina reads over plasmid database sequences. The k-mer filtered, most covered sequences are clustered by identity to avoid redundancy and the longest are used as scaffold for plasmid reconstruction. Reads are assembled and annotated by automatic and specific annotation. All information generated from mapping, assembly, annotation and local alignment analyses is gathered and accurately represented in a circular image which allow user to determine plasmidic composition in any bacterial sample. Description-md5: d2e67d45c872bf3607006dab611aef29 Homepage: https://github.com/BU-ISCIII/plasmidID Section: science Priority: optional Filename: pool/main/p/plasmidid/plasmidid_1.6.5+dfsg-1+b1_amd64.deb Size: 47544 MD5sum: a8e5cc17656f2791e96dcaca915aee97 SHA256: cbd4a3f1d7acd9f667848494993ea5362b35828089a42846245bf4033a150354 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'show', '--no-all-versions', 'plasmidid'] 0m9.0s INFO: apt-cache knows about the following packages: plasmidid 0m9.0s INFO: Running scripts pre_install 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 0m9.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 0m9.2s DUMP: plasmidid: Installed: (none) Candidate: 1.6.5+dfsg-1+b1 Version table: 1.6.5+dfsg-1+b1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid'] 0m52.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: adwaita-icon-theme aragorn at-spi2-common bedtools bowtie2 ca-certificates ca-certificates-java cd-hit circos default-jre default-jre-headless fontconfig fontconfig-config fonts-circos-symbols fonts-cmu fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme hmmer infernal java-common less libabsl20220623 libaom3 libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libavif15 libb-hooks-op-check-perl libbio-perl-perl libbio-searchio-hmmer-perl libbrotli1 libbsd0 libcairo2 libcapnp-0.9.1 libcarp-always-perl libclone-perl libconfig-general-perl libcups2 libcurl3-gnutls libdata-dumper-simple-perl libdata-stag-perl libdatrie1 libdav1d6 libdbus-1-3 libde265-0 libdeflate0 libdevel-callchecker-perl libdivsufsort3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdynaloader-functions-perl libedit2 libelf1 libexpat1 libfile-basedir-perl libfont-ttf-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-1 libgd-perl libgd3 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgetopt-simple-perl libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgsl27 libgslcblas0 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libheif1 libhts3 libhtscodecs2 libicu72 libio-all-perl libio-string-perl libipc-system-simple-perl libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 liblist-allutils-perl liblist-someutils-perl liblist-utilsby-perl libllvm15 liblmdb0 libmath-bezier-perl libmath-round-perl libmath-vec-perl libmath-vecstat-perl libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmodule-implementation-perl libmodule-runtime-perl libmpdec3 libmurmurhash2 libncbi6 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libnspr4 libnss3 libnuma1 libnumber-format-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl libparams-validate-perl libpcre3 libpcsclite1 libpixman-1-0 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librav1e0 libreadline8 libreadonly-perl libregexp-common-perl librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libset-intspan-perl libspiffy-perl libsqlite3-0 libssh2-1 libssl3 libstatistics-basic-perl libsvg-perl libsvtav1enc1 libswiss-perl libtext-format-perl libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libtry-tiny-perl libwebp7 libx11-6 libx11-data libx11-xcb1 libx265-199 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxpm4 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyuv0 libz3-4 mash media-types ncbi-blast+ ncbi-data ncbi-tools-bin openjdk-17-jre openjdk-17-jre-headless openssl parallel procps prodigal prokka python3 python3-minimal python3.10 python3.10-minimal readline-common samtools sensible-utils shared-mime-info sysstat ucf x11-common xz-utils Suggested packages: bowtie2-examples hmmer-doc libasound2-plugins alsa-utils bioperl libxml-sax-expatxs-perl cups-common libxml-parser-perl libgd-tools low-memory-monitor gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user gvfs libdb-file-lock-perl libfile-mimeinfo-perl libfile-readbackwards-perl libfreezethaw-perl libmldbm-perl liblcms2-utils libscalar-number-perl pcscd lm-sensors libsub-name-perl libvibrant6b ncbi-cn3d ncbi-tools-x11 libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic ash csh fish ksh tcsh zsh python3-doc python3-tk python3-venv python3.10-venv python3.10-doc binutils binfmt-support readline-doc cwltool isag Recommended packages: librsvg2-common circos-tools alsa-ucm-conf alsa-topology-conf bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-writer-perl libxml-twig-perl libxml-writer-perl libwww-perl perl-tk libxml-libxslt-perl libmldbm-perl libxml-perl dbus libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs libpod-coverage-perl libtest-pod-perl libgail-common libgtk2.0-bin krb5-locales libldap-common liblist-someutils-xs-perl libgpm2 publicsuffix libsasl2-modules libcgi-pm-perl libxml-sax-expat-perl libatk-wrapper-java-jni fonts-dejavu-extra trimmomatic spades python3-biopython python3-numpy python3-pandas psmisc systemd | cron | cron-daemon The following NEW packages will be installed: adwaita-icon-theme aragorn at-spi2-common bedtools bowtie2 ca-certificates ca-certificates-java cd-hit circos default-jre default-jre-headless fontconfig fontconfig-config fonts-circos-symbols fonts-cmu fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme hmmer infernal java-common less libabsl20220623 libaom3 libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libavif15 libb-hooks-op-check-perl libbio-perl-perl libbio-searchio-hmmer-perl libbrotli1 libbsd0 libcairo2 libcapnp-0.9.1 libcarp-always-perl libclone-perl libconfig-general-perl libcups2 libcurl3-gnutls libdata-dumper-simple-perl libdata-stag-perl libdatrie1 libdav1d6 libdbus-1-3 libde265-0 libdeflate0 libdevel-callchecker-perl libdivsufsort3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdynaloader-functions-perl libedit2 libelf1 libexpat1 libfile-basedir-perl libfont-ttf-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-1 libgd-perl libgd3 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgetopt-simple-perl libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgsl27 libgslcblas0 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libheif1 libhts3 libhtscodecs2 libicu72 libio-all-perl libio-string-perl libipc-system-simple-perl libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 liblist-allutils-perl liblist-someutils-perl liblist-utilsby-perl libllvm15 liblmdb0 libmath-bezier-perl libmath-round-perl libmath-vec-perl libmath-vecstat-perl libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmodule-implementation-perl libmodule-runtime-perl libmpdec3 libmurmurhash2 libncbi6 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libnspr4 libnss3 libnuma1 libnumber-format-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl libparams-validate-perl libpcre3 libpcsclite1 libpixman-1-0 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librav1e0 libreadline8 libreadonly-perl libregexp-common-perl librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libset-intspan-perl libspiffy-perl libsqlite3-0 libssh2-1 libssl3 libstatistics-basic-perl libsvg-perl libsvtav1enc1 libswiss-perl libtext-format-perl libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libtry-tiny-perl libwebp7 libx11-6 libx11-data libx11-xcb1 libx265-199 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxpm4 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyuv0 libz3-4 mash media-types ncbi-blast+ ncbi-data ncbi-tools-bin openjdk-17-jre openjdk-17-jre-headless openssl parallel plasmidid procps prodigal prokka python3 python3-minimal python3.10 python3.10-minimal readline-common samtools sensible-utils shared-mime-info sysstat ucf x11-common xz-utils 0 upgraded, 233 newly installed, 0 to remove and 0 not upgraded. Need to get 213 MB of archives. After this operation, 965 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.7-1 [2008 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-minimal amd64 3.10.8-3 [784 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 python3.10-minimal amd64 3.10.8-3 [1951 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.10.6-1 [38.7 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 media-types all 8.0.0 [33.4 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-1 [32.2 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-1 [78.6 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-1 [15.7 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-1 [331 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-1 [134 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.1 [68.4 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.1 [165 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.0-1 [838 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-stdlib amd64 3.10.8-3 [1685 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 python3.10 amd64 3.10.8-3 [506 kB] Get:22 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http://deb.debian.org/debian bookworm/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1 [306 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.1-2 [1393 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-2 [9374 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.1+b2 [687 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 shared-mime-info amd64 2.2-1 [729 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.2-1+b1 [169 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.38-2 [290 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.2-2+b2 [280 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libtiff5 amd64 4.4.0-5+b1 [302 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-1 [138 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 gtk-update-icon-cache amd64 3.24.34-5 [41.5 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 adwaita-icon-theme all 43-1 [5124 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 aragorn amd64 1.2.38-4 [86.7 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 at-spi2-common all 2.46.0-4 [161 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 bedtools amd64 2.30.0+dfsg-2 [663 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 bowtie2 amd64 2.4.5-1 [1383 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20220719 [16.1 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-9 [116 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 cd-hit amd64 4.8.1-4 [522 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 fonts-circos-symbols all 0.69.9+dfsg-2 [46.7 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 fonts-cmu all 0.7.0-5 [4892 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libregexp-common-perl all 2017060201-3 [175 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libcarp-always-perl all 0.16-1 [9620 B] Get:60 http://deb.debian.org/debian bookworm/main amd64 libconfig-general-perl all 2.65-2 [71.8 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libdata-dumper-simple-perl all 0.11-7 [12.5 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libaom3 amd64 3.5.0-1 [1796 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libdav1d6 amd64 1.0.0-2 [495 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libabsl20220623 amd64 20220623.1-1 [391 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libgav1-1 amd64 0.18.0-1+b1 [332 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 librav1e0 amd64 0.5.1-5 [762 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libsvtav1enc1 amd64 1.2.1+dfsg-1 [2076 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libyuv0 amd64 0.0~git20221018.8084f0b-1 [163 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libavif15 amd64 0.11.1-1 [93.8 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b5 [279 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.13.1-4.5 [281 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.13.1-4.5 [351 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libde265-0 amd64 1.0.9-1 [247 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libnuma1 amd64 2.0.15-1 [24.9 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libx265-199 amd64 3.5-2+b1 [1150 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libheif1 amd64 1.13.0-1 [203 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-1 [117 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.1-2 [308 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.1-2 [772 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libgd3 amd64 2.3.3-7 [124 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libgd-perl amd64 2.76-4+b1 [132 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libgetopt-simple-perl all 1.52-7 [15.5 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libmath-bezier-perl all 0.01-4 [7032 B] Get:91 http://deb.debian.org/debian bookworm/main amd64 libmath-round-perl all 0.07-3 [9312 B] Get:92 http://deb.debian.org/debian bookworm/main amd64 libb-hooks-op-check-perl amd64 0.22-2+b1 [10.5 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libdevel-callchecker-perl amd64 0.008-1+b4 [15.4 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libparams-classify-perl amd64 0.015-2+b1 [23.1 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libparams-validate-perl amd64 1.31-1 [64.4 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libreadonly-perl all 2.050-3 [23.1 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libset-intspan-perl all 1.19-3 [25.3 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 liblist-someutils-perl all 0.58-3 [36.5 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 liblist-allutils-perl all 0.19-1 [42.0 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libmath-vec-perl all 1.01-5 [17.1 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libspiffy-perl all 0.46-1 [25.7 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libio-all-perl all 0.87-2 [67.3 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libmath-vecstat-perl all 0.08-3 [8408 B] Get:111 http://deb.debian.org/debian bookworm/main amd64 libgraphics-colornames-perl all 3.5.0-3 [32.1 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libgraphics-colorobject-perl all 0.5.0-10 [29.1 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libtext-format-perl all 0.62-1 [22.7 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libclone-perl amd64 0.46-1 [13.7 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 libnumber-format-perl all 1.75-3 [28.9 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libstatistics-basic-perl all 1.6611-3 [61.5 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 libsvg-perl all 2.87-1 [64.3 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 circos all 0.69.9+dfsg-2 [14.0 MB] Get:121 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.73 [6268 B] Get:122 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-6+b1 [106 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-6+b1 [41.1 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.4-1 [235 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-6+b1 [44.9 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-1+b2 [243 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.13.1-1+b1 [153 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.85-1 [1333 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.7.2-1 [39.1 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.7.2-1 [380 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 5.2.0-2+b1 [1886 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-1 [60.8 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.5+8-2 [43.6 MB] Get:136 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-73 [2812 B] Get:137 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-common all 2.24.33-2 [2700 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libatk1.0-0 amd64 2.46.0-4 [49.5 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-6 [587 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.13.1-4.5 [417 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.10+ds-1 [239 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.10+ds-1 [75.4 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.10+ds-1 [62.4 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libxdamage1 amd64 1:1.1.5-2 [15.7 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1+b1 [84.2 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-0 amd64 2.24.33-2 [1855 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.5.0-1 [49.2 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.114-1 [7112 B] Get:163 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.114-1 [37.2 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.2.4-1 [34.5 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.8.1-2 [203 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:173 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.114-1 [20.6 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.114-1 [18.8 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.114-1 [21.6 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-1 [172 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-1 [92.9 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-3 [7216 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libllvm15 amd64 1:15.0.5-3 [23.1 MB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7.1 [34.2 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.2.4-1 [7067 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.2.4-1 [147 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.5.0-1 [35.7 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.5.0-1 [89.4 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre amd64 17.0.5+8-2 [167 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.17-73 [1060 B] Get:192 http://deb.debian.org/debian bookworm/main amd64 libdivsufsort3 amd64 2.0.1-5 [44.7 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 hmmer amd64 3.3.2+dfsg-1 [1153 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 infernal amd64 1.1.4-1 [5523 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 libbio-searchio-hmmer-perl all 1.7.3-2 [95.9 kB] Get:198 http://deb.debian.org/debian bookworm/main amd64 libcapnp-0.9.1 amd64 0.9.1-4+b1 [1290 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-9 [20.3 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-9 [59.7 kB] Get:201 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-2+b1 [183 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.50.0-1+b1 [73.1 kB] Get:203 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:204 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:205 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:206 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.86.0-2 [359 kB] Get:207 http://deb.debian.org/debian bookworm/main amd64 libgslcblas0 amd64 2.7.1+dfsg-3+b1 [116 kB] Get:208 http://deb.debian.org/debian bookworm/main amd64 libgsl27 amd64 2.7.1+dfsg-3+b1 [948 kB] Get:209 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:210 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:211 http://deb.debian.org/debian bookworm/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get:212 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.1-1 [274 kB] Get:213 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.1-1 [129 kB] Get:214 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.1-1 [164 kB] Get:215 http://deb.debian.org/debian bookworm/main amd64 libmurmurhash2 amd64 1.5-3 [5860 B] Get:216 http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:217 http://deb.debian.org/debian bookworm/main amd64 libncbi6 amd64 6.1.20170106+dfsg1-10 [4082 kB] Get:218 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-14 [345 kB] Get:219 http://deb.debian.org/debian bookworm/main amd64 libswiss-perl all 1.80-1 [776 kB] Get:220 http://deb.debian.org/debian bookworm/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:221 http://deb.debian.org/debian bookworm/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:222 http://deb.debian.org/debian bookworm/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:223 http://deb.debian.org/debian bookworm/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB] Get:224 http://deb.debian.org/debian bookworm/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:225 http://deb.debian.org/debian bookworm/main amd64 mash amd64 2.3+dfsg-3 [189 kB] Get:226 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get:227 http://deb.debian.org/debian bookworm/main amd64 ncbi-tools-bin amd64 6.1.20170106+dfsg1-10 [1941 kB] Get:228 http://deb.debian.org/debian bookworm/main amd64 sysstat amd64 12.5.6-1+b1 [595 kB] Get:229 http://deb.debian.org/debian bookworm/main amd64 parallel all 20220722+ds-1 [1849 kB] Get:230 http://deb.debian.org/debian bookworm/main amd64 samtools amd64 1.16.1-1 [607 kB] Get:231 http://deb.debian.org/debian bookworm/main amd64 prodigal amd64 1:2.6.3-5+b1 [508 kB] Get:232 http://deb.debian.org/debian bookworm/main amd64 prokka amd64 1.14.6+dfsg-4 [9968 kB] Get:233 http://deb.debian.org/debian bookworm/main amd64 plasmidid amd64 1.6.5+dfsg-1+b1 [47.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 213 MB in 2s (131 MB/s) Selecting previously unselected package libssl3:amd64. 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Setting up libdatrie1:amd64 (0.2.13-2+b1) ... Setting up libgslcblas0:amd64 (2.7.1+dfsg-3+b1) ... Setting up libmurmurhash2:amd64 (1.5-3) ... Setting up prodigal (1:2.6.3-5+b1) ... Setting up libclone-perl:amd64 (0.46-1) ... Setting up libgetopt-simple-perl (1.52-7) ... Setting up libglib2.0-0:amd64 (2.74.1-2) ... No schema files found: doing nothing. Setting up libglvnd0:amd64 (1.5.0-1) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libbrotli1:amd64 (1.0.9-2+b5) ... Setting up libsqlite3-0:amd64 (3.40.0-1) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libtry-tiny-perl (0.31-2) ... Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libnghttp2-14:amd64 (1.50.0-1+b1) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up less (590-1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up libsvg-perl (2.87-1) ... Setting up libgsl27:amd64 (2.7.1+dfsg-3+b1) ... Setting up libnumber-format-perl (1.75-3) ... Setting up libsvtav1enc1:amd64 (1.2.1+dfsg-1) ... Setting up libgomp1:amd64 (12.2.0-9) ... Setting up liblist-utilsby-perl (0.12-2) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libregexp-common-perl (2017060201-3) ... Setting up libmath-bezier-perl (0.01-4) ... Setting up librav1e0:amd64 (0.5.1-5) ... Setting up libkrb5support0:amd64 (1.20.1-1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-9) ... Setting up libasound2-data (1.2.7.2-1) ... Setting up infernal (1.1.4-1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-3.1) ... Setting up libreadonly-perl (2.050-3) ... Setting up fonts-cmu (0.7.0-5) ... Setting up libpcre3:amd64 (2:8.39-14) ... Setting up libz3-4:amd64 (4.8.12-3) ... Setting up libjpeg62-turbo:amd64 (1:2.1.2-1+b1) ... Setting up libmbedcrypto7:amd64 (2.28.1-1) ... Setting up libx11-data (2:1.8.1-2) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libavahi-common-data:amd64 (0.8-6+b1) ... Setting up libncurses6:amd64 (6.3+20220423-2) ... Setting up libdbus-1-3:amd64 (1.14.4-1) ... Setting up xz-utils (5.2.7-0.1) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libdata-dumper-simple-perl (0.11-7) ... Setting up libpng16-16:amd64 (1.6.38-2) ... Setting up libcapnp-0.9.1:amd64 (0.9.1-4+b1) ... Setting up mash (2.3+dfsg-3) ... Setting up libb-hooks-op-check-perl:amd64 (0.22-2+b1) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libgav1-1:amd64 (0.18.0-1+b1) ... Setting up libmath-vecstat-perl (0.08-3) ... Setting up libpcsclite1:amd64 (1.9.9-1) ... Setting up libsensors5:amd64 (1:3.6.0-7.1) ... 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Setting up libatk1.0-0:amd64 (2.46.0-4) ... Setting up libkrb5-3:amd64 (1.20.1-1) ... Setting up libtiff5:amd64 (4.4.0-5+b1) ... Setting up libgraphics-colornames-perl (3.5.0-3) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up fonts-circos-symbols (0.69.9+dfsg-2) ... Setting up libde265-0:amd64 (1.0.9-1) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up libdivsufsort3:amd64 (2.0.1-5) ... Setting up openssl (3.0.7-1) ... Setting up libbsd0:amd64 (0.11.7-1) ... Setting up libdrm-common (2.4.114-1) ... Setting up libyuv0:amd64 (0.0~git20221018.8084f0b-1) ... Setting up libelf1:amd64 (0.188-1) ... Setting up readline-common (8.2-1.1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Setting up bedtools (2.30.0+dfsg-2) ... Setting up libprocps8:amd64 (2:3.3.17-7.1) ... Setting up libmath-vec-perl (1.01-5) ... Setting up libstatistics-basic-perl (1.6611-3) ... Setting up cd-hit (4.8.1-4) ... Setting up libncbi6:amd64 (6.1.20170106+dfsg1-10) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libfile-basedir-perl (0.09-2) ... Setting up libxcb-xfixes0:amd64 (1.15-1) ... Setting up libavif15:amd64 (0.11.1-1) ... Setting up libmbedx509-1:amd64 (2.28.1-1) ... Setting up libmbedtls14:amd64 (2.28.1-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libedit2:amd64 (3.1-20221030-1) ... Setting up libreadline8:amd64 (8.2-1.1) ... Setting up libavahi-common3:amd64 (0.8-6+b1) ... Setting up libgraphics-colorobject-perl (0.5.0-10) ... Setting up libnss3:amd64 (2:3.85-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libio-all-perl (0.87-2) ... Setting up libdevel-callchecker-perl (0.008-1+b4) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libbio-searchio-hmmer-perl (1.7.3-2) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-3) ... Setting up libxcb-sync1:amd64 (1.15-1) ... Setting up shared-mime-info (2.2-1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-1) ... Setting up ucf (3.0043) ... Setting up libx265-199:amd64 (3.5-2+b1) ... Setting up libxcb-dri2-0:amd64 (1.15-1) ... Setting up libdrm2:amd64 (2.4.114-1) ... Setting up ncbi-tools-bin (6.1.20170106+dfsg1-10) ... Setting up procps (2:3.3.17-7.1) ... Setting up libllvm15:amd64 (1:15.0.5-3) ... Setting up hmmer (3.3.2+dfsg-1) ... Setting up libx11-6:amd64 (2:1.8.1-2) ... Setting up libharfbuzz0b:amd64 (5.2.0-2+b1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1) ... Setting up ca-certificates-java (20220719) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:EC-ACC.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem done. Setting up libxcomposite1:amd64 (1:0.4.5-1) ... Setting up sysstat (12.5.6-1+b1) ... Creating config file /etc/default/sysstat with new version update-alternatives: using /usr/bin/sar.sysstat to provide /usr/bin/sar (sar) in auto mode Setting up libavahi-client3:amd64 (0.8-6+b1) ... Setting up libdrm-amdgpu1:amd64 (2.4.114-1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up gtk-update-icon-cache (3.24.34-5) ... Setting up libx11-xcb1:amd64 (2:1.8.1-2) ... Setting up libdrm-nouveau2:amd64 (2.4.114-1) ... Setting up libxdamage1:amd64 (1:1.1.5-2) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libdrm-radeon1:amd64 (2.4.114-1) ... Setting up fontconfig-config (2.13.1-4.5) ... Setting up libparams-classify-perl:amd64 (0.015-2+b1) ... Setting up libgl1-mesa-dri:amd64 (22.2.4-1) ... Setting up libheif1:amd64 (1.13.0-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:amd64 (7.86.0-2) ... Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up adwaita-icon-theme (43-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libxfixes3:amd64 (1:6.0.0-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up parallel (20220722+ds-1) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libcups2:amd64 (2.4.2-1+b2) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libfontconfig1:amd64 (2.13.1-4.5) ... Setting up fontconfig (2.13.1-4.5) ... Regenerating fonts cache... done. Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libglx-mesa0:amd64 (22.2.4-1) ... Setting up libxi6:amd64 (2:1.8-1+b1) ... Setting up libglx0:amd64 (1.5.0-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up libpango-1.0-0:amd64 (1.50.10+ds-1) ... Setting up liblist-someutils-perl (0.58-3) ... Setting up libcairo2:amd64 (1.16.0-6) ... Setting up samtools (1.16.1-1) ... Setting up libpython3.10-stdlib:amd64 (3.10.8-3) ... Setting up liblist-allutils-perl (0.19-1) ... Setting up libgl1:amd64 (1.5.0-1) ... Setting up libgd3:amd64 (2.3.3-7) ... Setting up libxml-simple-perl (2.25-1) ... Setting up openjdk-17-jre-headless:amd64 (17.0.5+8-2) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libpangoft2-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libparams-validate-perl:amd64 (1.31-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.10+ds-1) ... Setting up libpython3-stdlib:amd64 (3.10.6-1) ... Setting up python3.10 (3.10.8-3) ... Setting up default-jre-headless (2:1.17-73) ... Setting up libgtk2.0-0:amd64 (2.24.33-2) ... Setting up python3 (3.10.6-1) ... Setting up bowtie2 (2.4.5-1) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up libgd-perl (2.76-4+b1) ... Setting up circos (0.69.9+dfsg-2) ... Setting up openjdk-17-jre:amd64 (17.0.5+8-2) ... Setting up default-jre (2:1.17-73) ... Setting up prokka (1.14.6+dfsg-4) ... Setting up plasmidid (1.6.5+dfsg-1+b1) ... Processing triggers for libc-bin (2.36-5) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20220719) ... done. 0m52.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid'] 0m52.8s INFO: Running scripts post_install 0m52.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 0m52.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 0m52.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 0m53.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 0m53.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp_pqsclg9 to sid 0m53.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m53.6s INFO: Running scripts pre_distupgrade 0m53.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m53.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m53.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_exceptions'] 0m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_exceptions'] 0m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m53.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'update'] 0m58.2s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [161 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9399 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6947 kB] Fetched 16.5 MB in 3s (4735 kB/s) Reading package lists... 0m58.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'update'] 0m58.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-yf', 'dist-upgrade'] 1m6.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bowtie2 libdebconfclient0 libedit2 libgcrypt20 libjbig0 libllvm15 liblzma5 libpython3-stdlib libreadline8 libsasl2-2 libsasl2-modules-db libsvtav1enc1 libtiff5 libyuv0 plasmidid python3 python3-minimal readline-common tar xz-utils zlib1g 21 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 29.8 MB of archives. After this operation, 181 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 tar amd64 1.34+dfsg-1.1 [836 kB] Get:2 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.10.6-3 [25.5 kB] Get:3 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.10.6-3 [25.2 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.10.6-3 [8588 B] Get:5 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.265 [7720 B] Get:6 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.10.1-3 [696 kB] Get:7 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.2.8-0.0 [186 kB] Get:8 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.2.13.dfsg-1 [86.7 kB] Get:9 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-1.2 [68.5 kB] Get:10 http://deb.debian.org/debian sid/main amd64 xz-utils amd64 5.2.8-0.0 [337 kB] Get:11 http://deb.debian.org/debian sid/main amd64 bowtie2 amd64 2.5.0-1 [1408 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6 [31.6 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libllvm15 amd64 1:15.0.5-4 [23.1 MB] Get:15 http://deb.debian.org/debian sid/main amd64 libreadline8 amd64 8.2-1.2 [165 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libsvtav1enc1 amd64 1.3.0+dfsg-1 [2126 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libtiff5 amd64 4.4.0-6 [302 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libyuv0 amd64 0.0~git20221118.ea26d7a-2 [164 kB] Get:21 http://deb.debian.org/debian sid/main amd64 plasmidid amd64 1.6.5+dfsg-2 [47.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 29.8 MB in 2s (18.9 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 ... 22667 files and directories currently installed.) Preparing to unpack .../tar_1.34+dfsg-1.1_amd64.deb ... Unpacking tar (1.34+dfsg-1.1) over (1.34+dfsg-1) ... Setting up tar (1.34+dfsg-1.1) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.10.6-3_amd64.deb ... Unpacking python3-minimal (3.10.6-3) over (3.10.6-1) ... Setting up python3-minimal (3.10.6-3) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../python3_3.10.6-3_amd64.deb ... Unpacking python3 (3.10.6-3) over (3.10.6-1) ... Preparing to unpack .../libpython3-stdlib_3.10.6-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.10.6-3) over (3.10.6-1) ... Preparing to unpack .../libdebconfclient0_0.265_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.265) over (0.264) ... Setting up libdebconfclient0:amd64 (0.265) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.10.1-3_amd64.deb ... Unpacking libgcrypt20:amd64 (1.10.1-3) over (1.10.1-2) ... Setting up libgcrypt20:amd64 (1.10.1-3) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../liblzma5_5.2.8-0.0_amd64.deb ... Unpacking liblzma5:amd64 (5.2.8-0.0) over (5.2.7-0.1) ... Setting up liblzma5:amd64 (5.2.8-0.0) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.2.13.dfsg-1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.2.13.dfsg-1) over (1:1.2.11.dfsg-4.1) ... Setting up zlib1g:amd64 (1:1.2.13.dfsg-1) ... (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 ... 22667 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.2-1.2_all.deb ... Unpacking readline-common (8.2-1.2) over (8.2-1.1) ... Preparing to unpack .../01-xz-utils_5.2.8-0.0_amd64.deb ... Unpacking xz-utils (5.2.8-0.0) over (5.2.7-0.1) ... Preparing to unpack .../02-bowtie2_2.5.0-1_amd64.deb ... Unpacking bowtie2 (2.5.0-1) over (2.4.5-1) ... Preparing to unpack .../03-libedit2_3.1-20221030-2_amd64.deb ... Unpacking libedit2:amd64 (3.1-20221030-2) over (3.1-20221030-1) ... Preparing to unpack .../04-libjbig0_2.1-6_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6) over (2.1-3.1+b2) ... Preparing to unpack .../05-libllvm15_1%3a15.0.5-4_amd64.deb ... Unpacking libllvm15:amd64 (1:15.0.5-4) over (1:15.0.5-3) ... Preparing to unpack .../06-libreadline8_8.2-1.2_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.2) over (8.2-1.1) ... Preparing to unpack .../07-libsasl2-modules-db_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg-10) over (2.1.28+dfsg-9) ... Preparing to unpack .../08-libsasl2-2_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg-10) over (2.1.28+dfsg-9) ... Preparing to unpack .../09-libsvtav1enc1_1.3.0+dfsg-1_amd64.deb ... Unpacking libsvtav1enc1:amd64 (1.3.0+dfsg-1) over (1.2.1+dfsg-1) ... Preparing to unpack .../10-libtiff5_4.4.0-6_amd64.deb ... Unpacking libtiff5:amd64 (4.4.0-6) over (4.4.0-5+b1) ... Preparing to unpack .../11-libyuv0_0.0~git20221118.ea26d7a-2_amd64.deb ... Unpacking libyuv0:amd64 (0.0~git20221118.ea26d7a-2) over (0.0~git20221018.8084f0b-1) ... Preparing to unpack .../12-plasmidid_1.6.5+dfsg-2_amd64.deb ... Unpacking plasmidid (1.6.5+dfsg-2) over (1.6.5+dfsg-1+b1) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libsvtav1enc1:amd64 (1.3.0+dfsg-1) ... Setting up libjbig0:amd64 (2.1-6) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up xz-utils (5.2.8-0.0) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libllvm15:amd64 (1:15.0.5-4) ... Setting up libtiff5:amd64 (4.4.0-6) ... Setting up libyuv0:amd64 (0.0~git20221118.ea26d7a-2) ... Setting up readline-common (8.2-1.2) ... Setting up libpython3-stdlib:amd64 (3.10.6-3) ... Setting up libreadline8:amd64 (8.2-1.2) ... Setting up python3 (3.10.6-3) ... Setting up bowtie2 (2.5.0-1) ... Setting up plasmidid (1.6.5+dfsg-2) ... Processing triggers for libc-bin (2.36-5) ... 1m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-yf', 'dist-upgrade'] 1m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m6.7s DUMP: 7e07af077cd09546387dd76ab58e50c4 - 1m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'show', '--no-all-versions', 'plasmidid'] 1m7.0s DUMP: Package: plasmidid Version: 1.6.5+dfsg-2 Installed-Size: 331 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3:any, ncbi-blast+, bedtools, bowtie2, samtools, prokka, cd-hit, mash, circos Recommends: trimmomatic, spades, python3-biopython, python3-numpy, python3-pandas Description-en: mapping-based, assembly-assisted plasmid identification tool PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification. . PlasmidID is a computational pipeline that maps Illumina reads over plasmid database sequences. The k-mer filtered, most covered sequences are clustered by identity to avoid redundancy and the longest are used as scaffold for plasmid reconstruction. Reads are assembled and annotated by automatic and specific annotation. All information generated from mapping, assembly, annotation and local alignment analyses is gathered and accurately represented in a circular image which allow user to determine plasmidic composition in any bacterial sample. Description-md5: d2e67d45c872bf3607006dab611aef29 Homepage: https://github.com/BU-ISCIII/plasmidID Section: science Priority: optional Filename: pool/main/p/plasmidid/plasmidid_1.6.5+dfsg-2_amd64.deb Size: 47212 MD5sum: fa7b528e02d2aacb387b176a5356e052 SHA256: e0ec3f8d2467bd4f685d0c2c32b08c57c3cf170714b522094b657a1f11f9336f 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'show', '--no-all-versions', 'plasmidid'] 1m7.0s INFO: apt-cache knows about the following packages: plasmidid 1m7.0s INFO: Running scripts pre_install 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 1m7.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 1m7.1s DUMP: plasmidid: Installed: 1.6.5+dfsg-2 Candidate: 1.6.5+dfsg-2 Version table: *** 1.6.5+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid'] 1m7.6s DUMP: Reading package lists... Building dependency tree... Reading state information... plasmidid is already the newest version (1.6.5+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid'] 1m7.6s INFO: Running scripts post_install 1m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 1m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 1m7.6s INFO: Running scripts post_distupgrade 1m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_exceptions'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_exceptions'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_zz_backports'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_distupgrade_zz_backports'] 1m7.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m8.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m8.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m9.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m9.2s INFO: Running scripts pre_install 1m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 1m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_database-server'] 1m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 1m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_exceptions'] 1m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 1m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_extras'] 1m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture'] 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 1m9.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy'] 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 1m9.3s DUMP: plasmidid: Installed: 1.6.5+dfsg-2 Candidate: 1.6.5+dfsg-2 Version table: *** 1.6.5+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-cache', 'policy', 'plasmidid'] 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid=1.6.5+dfsg-2'] 1m9.8s DUMP: Reading package lists... Building dependency tree... Reading state information... plasmidid is already the newest version (1.6.5+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', '-y', 'install', 'plasmidid=1.6.5+dfsg-2'] 1m9.8s INFO: Running scripts post_install 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 1m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_install_exceptions'] 1m9.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m10.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m12.2s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', '-ac', '--ignore-obsolete'] 1m16.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', '-ac', '--ignore-obsolete'] 1m16.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m16.7s DUMP: 0.15.6 1m16.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m16.7s INFO: Running adequate version 0.15.6 now. 1m16.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'plasmidid'] 1m16.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'plasmidid'] 1m16.8s INFO: Running scripts pre_remove 1m16.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m16.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m16.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m16.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m16.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m22.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m22.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m22.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m22.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_exceptions'] 1m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/pre_remove_exceptions'] 1m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m23.2s DUMP: install ok installed adwaita-icon-theme adwaita-icon-theme 43-1 install ok installed apt apt 2.5.4 install ok installed aragorn aragorn 1.2.38-4 install ok installed at-spi2-common at-spi2-common 2.46.0-4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2-2+b1 install ok installed bedtools bedtools 2.30.0+dfsg-2 install ok installed bowtie2 bowtie2 2.5.0-1 install ok installed bsdutils bsdutils 1:2.38.1-3 install ok installed ca-certificates ca-certificates 20211016 install ok installed ca-certificates-java ca-certificates-java 20220719 install ok installed cd-hit cd-hit 4.8.1-4 install ok installed circos circos 0.69.9+dfsg-2 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed default-jre default-jre 2:1.17-73 install ok installed default-jre-headless default-jre-headless 2:1.17-73 install ok installed diffutils diffutils 1:3.8-1 install ok installed dpkg dpkg 1.21.9+b1 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed findutils findutils 4.9.0-3 install ok installed fontconfig fontconfig 2.13.1-4.5 install ok installed fontconfig-config fontconfig-config 2.13.1-4.5 install ok installed fonts-circos-symbols fonts-circos-symbols 0.69.9+dfsg-2 install ok installed fonts-cmu fonts-cmu 0.7.0-5 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-2 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-9 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.34-5 install ok installed gzip gzip 1.12-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hmmer hmmer 3.3.2+dfsg-1 install ok installed hostname hostname 3.23 install ok installed infernal infernal 1.1.4-1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed java-common java-common 0.73 install ok installed less less 590-1 install ok installed libabsl20220623:amd64 libabsl20220623 20220623.1-1 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libaom3:amd64 libaom3 3.5.0-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libasound2:amd64 libasound2 1.2.7.2-1 install ok installed libasound2-data libasound2-data 1.2.7.2-1 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.46.0-4 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-6+b1 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-6+b1 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-6+b1 install ok installed libavif15:amd64 libavif15 0.11.1-1 install ok installed libb-hooks-op-check-perl:amd64 libb-hooks-op-check-perl 0.22-2+b1 install ok installed libbio-perl-perl libbio-perl-perl 1.7.8-1 install ok installed libbio-searchio-hmmer-perl libbio-searchio-hmmer-perl 1.7.3-2 install ok installed libblkid1:amd64 libblkid1 2.38.1-3 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b5 install ok installed libbsd0:amd64 libbsd0 0.11.7-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-5 install ok installed libc6:amd64 libc6 2.36-5 install ok installed libcairo2:amd64 libcairo2 1.16.0-6 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcapnp-0.9.1:amd64 libcapnp-0.9.1 0.9.1-4+b1 install ok installed libcarp-always-perl libcarp-always-perl 0.16-1 install ok installed libclone-perl:amd64 libclone-perl 0.46-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libconfig-general-perl libconfig-general-perl 2.65-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libcups2:amd64 libcups2 2.4.2-1+b2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.86.0-2 install ok installed libdata-dumper-simple-perl libdata-dumper-simple-perl 0.11-7 install ok installed libdata-stag-perl libdata-stag-perl 0.14-3 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2+b1 install ok installed libdav1d6:amd64 libdav1d6 1.0.0-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.4-1 install ok installed libde265-0:amd64 libde265-0 1.0.9-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.265 install ok installed libdeflate0:amd64 libdeflate0 1.14-1 install ok installed libdevel-callchecker-perl libdevel-callchecker-perl 0.008-1+b4 install ok installed libdivsufsort3:amd64 libdivsufsort3 2.0.1-5 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.114-1 install ok installed libdrm-common libdrm-common 2.4.114-1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.114-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.114-1 install ok installed libdrm2:amd64 libdrm2 2.4.114-1 install ok installed libdynaloader-functions-perl libdynaloader-functions-perl 0.003-3 install ok installed libedit2:amd64 libedit2 3.1-20221030-2 install ok installed libelf1:amd64 libelf1 0.188-1 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-basedir-perl libfile-basedir-perl 0.09-2 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libfont-ttf-perl libfont-ttf-perl 1.06-2 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.5 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-3 install ok installed libfribidi0:amd64 libfribidi0 1.0.8-2.1 install ok installed libgav1-1:amd64 libgav1-1 0.18.0-1+b1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-9 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgd-perl libgd-perl 2.76-4+b1 install ok installed libgd3:amd64 libgd3 2.3.3-7 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.10+dfsg-1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.10+dfsg-1 install ok installed libgetopt-simple-perl libgetopt-simple-perl 1.52-7 install ok installed libgif7:amd64 libgif7 5.2.1-2.5 install ok installed libgl1:amd64 libgl1 1.5.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 22.2.4-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 22.2.4-1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.74.1-2 install ok installed libglvnd0:amd64 libglvnd0 1.5.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 22.2.4-1 install ok installed libglx0:amd64 libglx0 1.5.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgomp1:amd64 libgomp1 12.2.0-9 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgraphics-colornames-perl libgraphics-colornames-perl 3.5.0-3 install ok installed libgraphics-colorobject-perl libgraphics-colorobject-perl 0.5.0-10 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgsl27:amd64 libgsl27 2.7.1+dfsg-3+b1 install ok installed libgslcblas0:amd64 libgslcblas0 2.7.1+dfsg-3+b1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-1 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.33-2 install ok installed libgtk2.0-common libgtk2.0-common 2.24.33-2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 5.2.0-2+b1 install ok installed libheif1:amd64 libheif1 1.13.0-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libhts3:amd64 libhts3 1.16+ds-3 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.3.0-4 install ok installed libicu72:amd64 libicu72 72.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libio-all-perl libio-all-perl 0.87-2 install ok installed libio-string-perl libio-string-perl 1.08-3.1 install ok installed libipc-system-simple-perl libipc-system-simple-perl 1.30-2 install ok installed libjbig0:amd64 libjbig0 2.1-6 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.2-1+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-1 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-1 install ok installed liblcms2-2:amd64 liblcms2-2 2.13.1-1+b1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-2+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-2 install ok installed liblist-allutils-perl liblist-allutils-perl 0.19-1 install ok installed liblist-someutils-perl liblist-someutils-perl 0.58-3 install ok installed liblist-utilsby-perl liblist-utilsby-perl 0.12-2 install ok installed libllvm15:amd64 libllvm15 1:15.0.5-4 install ok installed liblmdb0:amd64 liblmdb0 0.9.24-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.2.8-0.0 install ok installed libmath-bezier-perl libmath-bezier-perl 0.01-4 install ok installed libmath-round-perl libmath-round-perl 0.07-3 install ok installed libmath-vec-perl libmath-vec-perl 1.01-5 install ok installed libmath-vecstat-perl libmath-vecstat-perl 0.08-3 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.1-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.1-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.1-1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmodule-implementation-perl libmodule-implementation-perl 0.09-2 install ok installed libmodule-runtime-perl libmodule-runtime-perl 0.016-2 install ok installed libmount1:amd64 libmount1 2.38.1-3 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-2 install ok installed libmurmurhash2:amd64 libmurmurhash2 1.5-3 install ok installed libncbi6:amd64 libncbi6 6.1.20170106+dfsg1-10 install ok installed libncurses6:amd64 libncurses6 6.3+20220423-2 install ok installed libncursesw6:amd64 libncursesw6 6.3+20220423-2 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.50.0-1+b1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.35-1 install ok installed libnss3:amd64 libnss3 2:3.85-1 install ok installed libnuma1:amd64 libnuma1 2.0.15-1 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libnumber-format-perl libnumber-format-perl 1.75-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.50.10+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.50.10+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.50.10+ds-1 install ok installed libparams-classify-perl:amd64 libparams-classify-perl 0.015-2+b1 install ok installed libparams-validate-perl:amd64 libparams-validate-perl 1.31-1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-2 install ok installed libpcre3:amd64 libpcre3 2:8.39-14 install ok installed libpcsclite1:amd64 libpcsclite1 1.9.9-1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-4 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.38-2 install ok installed libprocps8:amd64 libprocps8 2:3.3.17-7.1 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.10.6-3 install ok installed libpython3.10-minimal:amd64 libpython3.10-minimal 3.10.8-3 install ok installed libpython3.10-stdlib:amd64 libpython3.10-stdlib 3.10.8-3 install ok installed librav1e0:amd64 librav1e0 0.5.1-5 install ok installed libreadline8:amd64 libreadline8 8.2-1.2 install ok installed libreadonly-perl libreadonly-perl 2.050-3 install ok installed libregexp-common-perl libregexp-common-perl 2017060201-3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b3 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b3 install ok installed libsensors-config libsensors-config 1:3.6.0-7.1 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-7.1 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libset-intspan-perl libset-intspan-perl 1.19-3 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-3 install ok installed libspiffy-perl libspiffy-perl 0.46-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.0-1 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.7-1 install ok installed libstatistics-basic-perl libstatistics-basic-perl 1.6611-3 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-9 install ok installed libsvg-perl libsvg-perl 2.87-1 install ok installed libsvtav1enc1:amd64 libsvtav1enc1 1.3.0+dfsg-1 install ok installed libswiss-perl libswiss-perl 1.80-1 install ok installed libsystemd0:amd64 libsystemd0 252.1-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtext-format-perl libtext-format-perl 0.62-1 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libthai-data libthai-data 0.1.29-1 install ok installed libthai0:amd64 libthai0 0.1.29-1 install ok installed libtiff5:amd64 libtiff5 4.4.0-6 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libtry-tiny-perl libtry-tiny-perl 0.31-2 install ok installed libudev1:amd64 libudev1 252.1-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-3 install ok installed libwebp7:amd64 libwebp7 1.2.2-2+b2 install ok installed libx11-6:amd64 libx11-6 2:1.8.1-2 install ok installed libx11-data libx11-data 2:1.8.1-2 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.1-2 install ok installed libx265-199:amd64 libx265-199 3.5-2+b1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.15-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.15-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.15-1 install ok installed libxcb-present0:amd64 libxcb-present0 1.15-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.15-1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.1-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.5-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2 install ok installed libxi6:amd64 libxi6 2:1.8-1+b1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3 install ok installed libxml-libxml-perl libxml-libxml-perl 2.0207+dfsg+really+2.0134-1+b1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.12-2 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.09-3 install ok installed libxml-sax-perl libxml-sax-perl 1.02+dfsg-3 install ok installed libxml-simple-perl libxml-simple-perl 2.25-1 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.1+b2 install ok installed libxpm4:amd64 libxpm4 1:3.5.12-1 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.2-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libyuv0:amd64 libyuv0 0.0~git20221118.ea26d7a-2 install ok installed libz3-4:amd64 libz3-4 4.8.12-3 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mash mash 2.3+dfsg-3 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 8.0.0 install ok installed mount mount 2.38.1-3 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-3+b1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-10 install ok installed ncbi-tools-bin ncbi-tools-bin 6.1.20170106+dfsg1-10 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed openjdk-17-jre:amd64 openjdk-17-jre 17.0.5+8-2 install ok installed openjdk-17-jre-headless:amd64 openjdk-17-jre-headless 17.0.5+8-2 install ok installed openssl openssl 3.0.7-1 install ok installed parallel parallel 20220722+ds-1 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-4 install ok installed perl-base perl-base 5.36.0-4 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-4 install ok installed plasmidid plasmidid 1.6.5+dfsg-2 install ok installed procps procps 2:3.3.17-7.1 install ok installed prodigal prodigal 1:2.6.3-5+b1 install ok installed prokka prokka 1.14.6+dfsg-4 install ok installed python3 python3 3.10.6-3 install ok installed python3-minimal python3-minimal 3.10.6-3 install ok installed python3.10 python3.10 3.10.8-3 install ok installed python3.10-minimal python3.10-minimal 3.10.8-3 install ok installed readline-common readline-common 8.2-1.2 install ok installed samtools samtools 1.16.1-1 install ok installed sed sed 4.8-1 install ok installed sensible-utils sensible-utils 0.0.17 install ok installed shared-mime-info shared-mime-info 2.2-1 install ok installed sysstat sysstat 12.5.6-1+b1 install ok installed sysvinit-utils sysvinit-utils 3.05-7 install ok installed tar tar 1.34+dfsg-1.1 install ok installed tzdata tzdata 2022f-1 install ok installed ucf ucf 3.0043 install ok installed usr-is-merged usr-is-merged 33 install ok installed usrmerge usrmerge 33 install ok installed util-linux util-linux 2.38.1-3 install ok installed util-linux-extra util-linux-extra 2.38.1-3 install ok installed x11-common x11-common 1:7.7+23 install ok installed xz-utils xz-utils 5.2.8-0.0 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 1m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'remove', 'adwaita-icon-theme', 'aragorn', 'at-spi2-common', 'bedtools', 'bowtie2', 'ca-certificates', 'ca-certificates-java', 'cd-hit', 'circos', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hmmer', 'infernal', 'java-common', 'less', 'libabsl20220623:amd64', 'libaom3:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libavif15:amd64', 'libb-hooks-op-check-perl:amd64', 'libbio-perl-perl', 'libbio-searchio-hmmer-perl', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcapnp-0.9.1:amd64', 'libcarp-always-perl', 'libclone-perl:amd64', 'libconfig-general-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdatrie1:amd64', 'libdav1d6:amd64', 'libdbus-1-3:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdevel-callchecker-perl', 'libdivsufsort3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdynaloader-functions-perl', 'libedit2:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfile-basedir-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgd-perl', 'libgd3:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-simple-perl', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgsl27:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libheif1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libicu72:amd64', 'libio-all-perl', 'libio-string-perl', 'libipc-system-simple-perl', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblist-allutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmath-bezier-perl', 'libmath-round-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmpdec3:amd64', 'libmurmurhash2:amd64', 'libncbi6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libparams-classify-perl:amd64', 'libparams-validate-perl:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'librav1e0:amd64', 'libreadline8:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libset-intspan-perl', 'libspiffy-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstatistics-basic-perl', 'libsvg-perl', 'libsvtav1enc1:amd64', 'libswiss-perl', 'libtext-format-perl', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtry-tiny-perl', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libx265-199:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxpm4:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'mash', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'ncbi-tools-bin', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'parallel', 'procps', 'prodigal', 'prokka', 'python3', 'python3-minimal', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'shared-mime-info', 'sysstat', 'ucf', 'x11-common', 'xz-utils', 'plasmidid'] 1m27.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adwaita-icon-theme aragorn at-spi2-common bedtools bowtie2 ca-certificates ca-certificates-java cd-hit circos default-jre default-jre-headless fontconfig fontconfig-config fonts-circos-symbols fonts-cmu fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme hmmer infernal java-common less libabsl20220623 libaom3 libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libavif15 libb-hooks-op-check-perl libbio-perl-perl libbio-searchio-hmmer-perl libbrotli1 libbsd0 libcairo2 libcapnp-0.9.1 libcarp-always-perl libclone-perl libconfig-general-perl libcups2 libcurl3-gnutls libdata-dumper-simple-perl libdata-stag-perl libdatrie1 libdav1d6 libdbus-1-3 libde265-0 libdeflate0 libdevel-callchecker-perl libdivsufsort3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdynaloader-functions-perl libedit2 libelf1 libexpat1 libfile-basedir-perl libfont-ttf-perl libfontconfig1 libfreetype6 libfribidi0 libgav1-1 libgd-perl libgd3 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgetopt-simple-perl libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgsl27 libgslcblas0 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libheif1 libhts3 libhtscodecs2 libicu72 libio-all-perl libio-string-perl libipc-system-simple-perl libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 liblist-allutils-perl liblist-someutils-perl liblist-utilsby-perl libllvm15 liblmdb0 libmath-bezier-perl libmath-round-perl libmath-vec-perl libmath-vecstat-perl libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmodule-implementation-perl libmodule-runtime-perl libmpdec3 libmurmurhash2 libncbi6 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libnspr4 libnss3 libnuma1 libnumber-format-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl libparams-validate-perl libpcre3 libpcsclite1 libpixman-1-0 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librav1e0 libreadline8 libreadonly-perl libregexp-common-perl librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libset-intspan-perl libspiffy-perl libsqlite3-0 libssh2-1 libssl3 libstatistics-basic-perl libsvg-perl libsvtav1enc1 libswiss-perl libtext-format-perl libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libtry-tiny-perl libwebp7 libx11-6 libx11-data libx11-xcb1 libx265-199 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxpm4 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyuv0 libz3-4 mash media-types ncbi-blast+ ncbi-data ncbi-tools-bin openjdk-17-jre openjdk-17-jre-headless openssl parallel plasmidid procps prodigal prokka python3 python3-minimal python3.10 python3.10-minimal readline-common samtools sensible-utils shared-mime-info sysstat ucf x11-common xz-utils 0 upgraded, 0 newly installed, 233 to remove and 0 not upgraded. After this operation, 965 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 ... 22662 files and directories currently installed.) Removing plasmidid (1.6.5+dfsg-2) ... Removing prokka (1.14.6+dfsg-4) ... Removing default-jre (2:1.17-73) ... Removing openjdk-17-jre:amd64 (17.0.5+8-2) ... Removing libgtk2.0-0:amd64 (2.24.33-2) ... Removing adwaita-icon-theme (43-1) ... Removing aragorn (1.2.38-4) ... Removing libatk1.0-0:amd64 (2.46.0-4) ... Removing at-spi2-common (2.46.0-4) ... Removing bedtools (2.30.0+dfsg-2) ... Removing bowtie2 (2.5.0-1) ... Removing default-jre-headless (2:1.17-73) ... Removing openjdk-17-jre-headless:amd64 (17.0.5+8-2) ... Removing ca-certificates-java (20220719) ... Removing ca-certificates (20211016) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing cd-hit (4.8.1-4) ... Removing circos (0.69.9+dfsg-2) ... Removing libpangocairo-1.0-0:amd64 (1.50.10+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.50.10+ds-1) ... Removing libpango-1.0-0:amd64 (1.50.10+ds-1) ... Removing fontconfig (2.13.1-4.5) ... Removing libgd-perl (2.76-4+b1) ... Removing libgd3:amd64 (2.3.3-7) ... Removing libcairo2:amd64 (1.16.0-6) ... Removing libfontconfig1:amd64 (2.13.1-4.5) ... Removing fontconfig-config (2.13.1-4.5) ... Removing fonts-circos-symbols (0.69.9+dfsg-2) ... Removing fonts-cmu (0.7.0-5) ... dpkg: warning: while removing fonts-cmu, directory '/usr/share/fonts/truetype/cmu' not empty so not removed Removing fonts-dejavu-core (2.37-2) ... Removing gtk-update-icon-cache (3.24.34-5) ... Removing hicolor-icon-theme (0.17-2) ... Removing hmmer (3.3.2+dfsg-1) ... Removing infernal (1.1.4-1) ... Removing java-common (0.73) ... Removing less (590-1) ... Removing libavif15:amd64 (0.11.1-1) ... Removing libgav1-1:amd64 (0.18.0-1+b1) ... Removing libabsl20220623:amd64 (20220623.1-1) ... Removing libheif1:amd64 (1.13.0-1) ... Removing libaom3:amd64 (3.5.0-1) ... Removing libasound2:amd64 (1.2.7.2-1) ... Removing libasound2-data (1.2.7.2-1) ... Removing libcups2:amd64 (2.4.2-1+b2) ... Removing libavahi-client3:amd64 (0.8-6+b1) ... Removing libavahi-common3:amd64 (0.8-6+b1) ... Removing libavahi-common-data:amd64 (0.8-6+b1) ... Removing libparams-validate-perl:amd64 (1.31-1) ... Removing liblist-allutils-perl (0.19-1) ... Removing liblist-someutils-perl (0.58-3) ... Removing libmodule-implementation-perl (0.09-2) ... Removing libmodule-runtime-perl (0.016-2) ... Removing libparams-classify-perl:amd64 (0.015-2+b1) ... Removing libdevel-callchecker-perl (0.008-1+b4) ... Removing libb-hooks-op-check-perl:amd64 (0.22-2+b1) ... Removing libbio-searchio-hmmer-perl (1.7.3-2) ... Removing libbio-perl-perl (1.7.8-1) ... Removing libharfbuzz0b:amd64 (5.2.0-2+b1) ... Removing libfreetype6:amd64 (2.12.1+dfsg-3) ... Removing samtools (1.16.1-1) ... Removing libhts3:amd64 (1.16+ds-3) ... Removing libcurl3-gnutls:amd64 (7.86.0-2) ... Removing libbrotli1:amd64 (1.0.9-2+b5) ... Removing libgl1:amd64 (1.5.0-1) ... Removing libglx0:amd64 (1.5.0-1) ... Removing libglx-mesa0:amd64 (22.2.4-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libgl1-mesa-dri:amd64 (22.2.4-1) ... Removing libllvm15:amd64 (1:15.0.5-4) ... Removing libedit2:amd64 (3.1-20221030-2) ... Removing mash (2.3+dfsg-3) ... Removing libcapnp-0.9.1:amd64 (0.9.1-4+b1) ... Removing libcarp-always-perl (0.16-1) ... Removing libclone-perl:amd64 (0.46-1) ... Removing libconfig-general-perl (2.65-2) ... Removing libdata-dumper-simple-perl (0.11-7) ... Removing libdata-stag-perl (0.14-3) ... Removing libthai0:amd64 (0.1.29-1) ... Removing libdatrie1:amd64 (0.2.13-2+b1) ... Removing libdav1d6:amd64 (1.0.0-2) ... Removing libdbus-1-3:amd64 (1.14.4-1) ... Removing libde265-0:amd64 (1.0.9-1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1) ... Removing libtiff5:amd64 (4.4.0-6) ... Removing libdeflate0:amd64 (1.14-1) ... Removing libdivsufsort3:amd64 (2.0.1-5) ... Removing libdrm-amdgpu1:amd64 (2.4.114-1) ... Removing libdrm-radeon1:amd64 (2.4.114-1) ... Removing libdrm-nouveau2:amd64 (2.4.114-1) ... Removing libdrm2:amd64 (2.4.114-1) ... Removing libdrm-common (2.4.114-1) ... Removing libdynaloader-functions-perl (0.003-3) ... Removing libelf1:amd64 (0.188-1) ... Removing ncbi-blast+ (2.12.0+ds-3+b1) ... Removing python3 (3.10.6-3) ... Removing python3.10 (3.10.8-3) ... Removing python3-minimal (3.10.6-3) ... Removing python3.10-minimal (3.10.8-3) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing libfile-basedir-perl (0.09-2) ... Removing libfont-ttf-perl (1.06-2) ... Removing libfribidi0:amd64 (1.0.8-2.1) ... Removing libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Removing libgetopt-simple-perl (1.52-7) ... Removing libgif7:amd64 (5.2.1-2.5) ... Removing libglapi-mesa:amd64 (22.2.4-1) ... Removing shared-mime-info (2.2-1) ... Removing libglib2.0-0:amd64 (2.74.1-2) ... Removing libglvnd0:amd64 (1.5.0-1) ... Removing libgomp1:amd64 (12.2.0-9) ... Removing libgraphics-colorobject-perl (0.5.0-10) ... Removing libgraphics-colornames-perl (3.5.0-3) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libgsl27:amd64 (2.7.1+dfsg-3+b1) ... Removing libgslcblas0:amd64 (2.7.1+dfsg-3+b1) ... Removing libpython3-stdlib:amd64 (3.10.6-3) ... Removing libpython3.10-stdlib:amd64 (3.10.8-3) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-1) ... Removing libgtk2.0-common (2.24.33-2) ... Removing libhtscodecs2:amd64 (1.3.0-4) ... Removing libxml-simple-perl (2.25-1) ... Removing libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing libxml2:amd64 (2.9.14+dfsg-1.1+b2) ... Removing libicu72:amd64 (72.1-2) ... Removing libio-all-perl (0.87-2) ... Removing libio-string-perl (1.08-3.1) ... Removing libipc-system-simple-perl (1.30-2) ... Removing libjbig0:amd64 (2.1-6) ... Removing libyuv0:amd64 (0.0~git20221118.ea26d7a-2) ... Removing libjpeg62-turbo:amd64 (1:2.1.2-1+b1) ... Removing libkrb5-3:amd64 (1.20.1-1) ... Removing libk5crypto3:amd64 (1.20.1-1) ... Removing libkeyutils1:amd64 (1.6.3-1) ... Removing libkrb5support0:amd64 (1.20.1-1) ... Removing liblcms2-2:amd64 (2.13.1-1+b1) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-2+b1) ... Removing liblerc4:amd64 (4.0.0+ds-2) ... Removing liblist-utilsby-perl (0.12-2) ... Removing liblmdb0:amd64 (0.9.24-1) ... Removing libmath-bezier-perl (0.01-4) ... Removing libmath-round-perl (0.07-3) ... Removing libmath-vec-perl (1.01-5) ... Removing libmath-vecstat-perl (0.08-3) ... Removing libmbedtls14:amd64 (2.28.1-1) ... Removing libmbedx509-1:amd64 (2.28.1-1) ... Removing libmbedcrypto7:amd64 (2.28.1-1) ... Removing libmpdec3:amd64 (2.5.1-2) ... Removing libmurmurhash2:amd64 (1.5-3) ... Removing ncbi-tools-bin (6.1.20170106+dfsg1-10) ... Removing libncbi6:amd64 (6.1.20170106+dfsg1-10) ... Removing parallel (20220722+ds-1) ... Removing 'diversion of /usr/bin/parallel to /usr/bin/parallel.moreutils by parallel' Removing 'diversion of /usr/share/man/man1/parallel.1.gz to /usr/share/man/man1/parallel.moreutils.1.gz by parallel' Removing procps (2:3.3.17-7.1) ... Removing libncurses6:amd64 (6.3+20220423-2) ... Removing libncursesw6:amd64 (6.3+20220423-2) ... Removing libnghttp2-14:amd64 (1.50.0-1+b1) ... Removing libnss3:amd64 (2:3.85-1) ... Removing libnspr4:amd64 (2:4.35-1) ... Removing libx265-199:amd64 (3.5-2+b1) ... Removing libnuma1:amd64 (2.0.15-1) ... Removing libstatistics-basic-perl (1.6611-3) ... Removing libnumber-format-perl (1.75-3) ... Removing libpcre3:amd64 (2:8.39-14) ... Removing libpcsclite1:amd64 (1.9.9-1) ... Removing libpixman-1-0:amd64 (0.42.2-1) ... Removing libpng16-16:amd64 (1.6.38-2) ... Removing libprocps8:amd64 (2:3.3.17-7.1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing libpython3.10-minimal:amd64 (3.10.8-3) ... find: '/usr/lib/python3': No such file or directory Removing librav1e0:amd64 (0.5.1-5) ... Removing libreadline8:amd64 (8.2-1.2) ... Removing libreadonly-perl (2.050-3) ... Removing libregexp-common-perl (2017060201-3) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing sysstat (12.5.6-1+b1) ... Removing libsensors5:amd64 (1:3.6.0-7.1) ... Removing libsensors-config (1:3.6.0-7.1) ... Removing libset-intspan-perl (1.19-3) ... Removing libspiffy-perl (0.46-1) ... Removing libsqlite3-0:amd64 (3.40.0-1) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing openssl (3.0.7-1) ... Removing libssl3:amd64 (3.0.7-1) ... Removing libsvg-perl (2.87-1) ... Removing libsvtav1enc1:amd64 (1.3.0+dfsg-1) ... Removing libswiss-perl (1.80-1) ... Removing libtext-format-perl (0.62-1) ... Removing libthai-data (0.1.29-1) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing libtry-tiny-perl (0.31-2) ... Removing libwebp7:amd64 (1.2.2-2+b2) ... Removing libx11-xcb1:amd64 (2:1.8.1-2) ... Removing libxcb-dri2-0:amd64 (1.15-1) ... Removing libxcb-dri3-0:amd64 (1.15-1) ... Removing libxcb-glx0:amd64 (1.15-1) ... Removing libxcb-present0:amd64 (1.15-1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libxcb-sync1:amd64 (1.15-1) ... Removing libxcb-xfixes0:amd64 (1.15-1) ... Removing libxcomposite1:amd64 (1:0.4.5-1) ... Removing libxcursor1:amd64 (1:1.2.1-1) ... Removing libxdamage1:amd64 (1:1.1.5-2) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libxrandr2:amd64 (2:1.5.2-2+b1) ... Removing libxfixes3:amd64 (1:6.0.0-2) ... Removing libxi6:amd64 (2:1.8-1+b1) ... Removing libxinerama1:amd64 (2:1.1.4-3) ... Removing libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-namespacesupport-perl (1.12-2) ... Removing libxml-sax-base-perl (1.09-3) ... Removing libxpm4:amd64 (1:3.5.12-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libz3-4:amd64 (4.8.12-3) ... Removing media-types (8.0.0) ... Removing ncbi-data (6.1.20170106+dfsg1-10) ... Removing prodigal (1:2.6.3-5+b1) ... Removing readline-common (8.2-1.2) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.17) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xz-utils (5.2.8-0.0) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libx11-6:amd64 (2:1.8.1-2) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.7-1) ... Removing libmd0:amd64 (1.0.4-2) ... Removing libx11-data (2:1.8.1-2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Processing triggers for libc-bin (2.36-5) ... 1m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'remove', 'adwaita-icon-theme', 'aragorn', 'at-spi2-common', 'bedtools', 'bowtie2', 'ca-certificates', 'ca-certificates-java', 'cd-hit', 'circos', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hmmer', 'infernal', 'java-common', 'less', 'libabsl20220623:amd64', 'libaom3:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libavif15:amd64', 'libb-hooks-op-check-perl:amd64', 'libbio-perl-perl', 'libbio-searchio-hmmer-perl', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcapnp-0.9.1:amd64', 'libcarp-always-perl', 'libclone-perl:amd64', 'libconfig-general-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdatrie1:amd64', 'libdav1d6:amd64', 'libdbus-1-3:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdevel-callchecker-perl', 'libdivsufsort3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdynaloader-functions-perl', 'libedit2:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfile-basedir-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgd-perl', 'libgd3:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-simple-perl', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgsl27:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libheif1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libicu72:amd64', 'libio-all-perl', 'libio-string-perl', 'libipc-system-simple-perl', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblist-allutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmath-bezier-perl', 'libmath-round-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmpdec3:amd64', 'libmurmurhash2:amd64', 'libncbi6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libparams-classify-perl:amd64', 'libparams-validate-perl:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'librav1e0:amd64', 'libreadline8:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libset-intspan-perl', 'libspiffy-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstatistics-basic-perl', 'libsvg-perl', 'libsvtav1enc1:amd64', 'libswiss-perl', 'libtext-format-perl', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtry-tiny-perl', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libx265-199:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxpm4:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'mash', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'ncbi-tools-bin', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'parallel', 'procps', 'prodigal', 'prokka', 'python3', 'python3-minimal', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'shared-mime-info', 'sysstat', 'ucf', 'x11-common', 'xz-utils', 'plasmidid'] 1m27.3s INFO: Running scripts post_remove 1m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_remove_exceptions'] 1m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_remove_exceptions'] 1m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', 'adwaita-icon-theme', 'aragorn', 'at-spi2-common', 'bedtools', 'bowtie2', 'ca-certificates', 'ca-certificates-java', 'cd-hit', 'circos', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hmmer', 'infernal', 'java-common', 'less', 'libabsl20220623:amd64', 'libaom3:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libavif15:amd64', 'libb-hooks-op-check-perl:amd64', 'libbio-perl-perl', 'libbio-searchio-hmmer-perl', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcapnp-0.9.1:amd64', 'libcarp-always-perl', 'libclone-perl:amd64', 'libconfig-general-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdatrie1:amd64', 'libdav1d6:amd64', 'libdbus-1-3:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdevel-callchecker-perl', 'libdivsufsort3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdynaloader-functions-perl', 'libedit2:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfile-basedir-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgd-perl', 'libgd3:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-simple-perl', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgsl27:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libheif1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libicu72:amd64', 'libio-all-perl', 'libio-string-perl', 'libipc-system-simple-perl', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblist-allutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmath-bezier-perl', 'libmath-round-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmpdec3:amd64', 'libmurmurhash2:amd64', 'libncbi6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libparams-classify-perl:amd64', 'libparams-validate-perl:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'librav1e0:amd64', 'libreadline8:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libset-intspan-perl', 'libspiffy-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstatistics-basic-perl', 'libsvg-perl', 'libsvtav1enc1:amd64', 'libswiss-perl', 'libtext-format-perl', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtry-tiny-perl', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libx265-199:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxpm4:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'mash', 'media-types', 'ncbi-blast+', 'ncbi-data', 'ncbi-tools-bin', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'parallel', 'procps', 'prodigal', 'prokka', 'python3', 'python3-minimal', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'shared-mime-info', 'sysstat', 'ucf', 'x11-common', 'xz-utils'] 1m28.5s DUMP: (Reading database ... 8766 files and directories currently installed.) Purging configuration files for adwaita-icon-theme (43-1) ... dpkg: warning: ignoring request to remove aragorn which isn't installed dpkg: warning: ignoring request to remove at-spi2-common which isn't installed dpkg: warning: ignoring request to remove bedtools which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed Purging configuration files for ca-certificates (20211016) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20220719) ... dpkg: warning: ignoring request to remove cd-hit which isn't installed Purging configuration files for circos (0.69.9+dfsg-2) ... dpkg: warning: ignoring request to remove default-jre which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for fontconfig (2.13.1-4.5) ... Purging configuration files for fontconfig-config (2.13.1-4.5) ... dpkg: warning: ignoring request to remove fonts-circos-symbols which isn't installed dpkg: warning: ignoring request to remove fonts-cmu which isn't installed Purging configuration files for fonts-dejavu-core (2.37-2) ... dpkg: warning: while removing fonts-dejavu-core, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed dpkg: warning: ignoring request to remove hmmer which isn't installed dpkg: warning: ignoring request to remove infernal which isn't installed Purging configuration files for java-common (0.73) ... dpkg: warning: ignoring request to remove less which isn't installed dpkg: warning: ignoring request to remove libabsl20220623 which isn't installed dpkg: warning: ignoring request to remove libaom3 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 libatk1.0-0 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 libavif15 which isn't installed dpkg: warning: ignoring request to remove libb-hooks-op-check-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed dpkg: warning: ignoring request to remove libbio-searchio-hmmer-perl which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcapnp-0.9.1 which isn't installed dpkg: warning: ignoring request to remove libcarp-always-perl which isn't installed dpkg: warning: ignoring request to remove libclone-perl which isn't installed dpkg: warning: ignoring request to remove libconfig-general-perl 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 libdata-dumper-simple-perl which isn't installed dpkg: warning: ignoring request to remove libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdav1d6 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libde265-0 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdevel-callchecker-perl which isn't installed dpkg: warning: ignoring request to remove libdivsufsort3 which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm-nouveau2 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libdynaloader-functions-perl which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libelf1 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfile-basedir-perl which isn't installed dpkg: warning: ignoring request to remove libfont-ttf-perl 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 libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgav1-1 which isn't installed dpkg: warning: ignoring request to remove libgd-perl which isn't installed dpkg: warning: ignoring request to remove libgd3 which isn't installed Purging configuration files for libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgetopt-simple-perl which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgl1 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (22.2.4-1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.74.1-2) ... dpkg: warning: ignoring request to remove libglvnd0 which isn't installed dpkg: warning: ignoring request to remove libglx-mesa0 which isn't installed dpkg: warning: ignoring request to remove libglx0 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphics-colornames-perl which isn't installed dpkg: warning: ignoring request to remove libgraphics-colorobject-perl which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libgsl27 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-1) ... Purging configuration files for libgtk2.0-0:amd64 (2.24.33-2) ... Purging configuration files for libgtk2.0-common (2.24.33-2) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libheif1 which isn't installed dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libio-all-perl which isn't installed dpkg: warning: ignoring request to remove libio-string-perl which isn't installed dpkg: warning: ignoring request to remove libipc-system-simple-perl which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove liblist-allutils-perl which isn't installed dpkg: warning: ignoring request to remove liblist-someutils-perl which isn't installed dpkg: warning: ignoring request to remove liblist-utilsby-perl which isn't installed dpkg: warning: ignoring request to remove libllvm15 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmath-bezier-perl which isn't installed dpkg: warning: ignoring request to remove libmath-round-perl which isn't installed dpkg: warning: ignoring request to remove libmath-vec-perl which isn't installed dpkg: warning: ignoring request to remove libmath-vecstat-perl which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libmodule-implementation-perl which isn't installed dpkg: warning: ignoring request to remove libmodule-runtime-perl which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libmurmurhash2 which isn't installed dpkg: warning: ignoring request to remove libncbi6 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 libnsl2 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 libnuma1 which isn't installed dpkg: warning: ignoring request to remove libnumber-format-perl which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libparams-classify-perl which isn't installed dpkg: warning: ignoring request to remove libparams-validate-perl which isn't installed dpkg: warning: ignoring request to remove libpcre3 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libprocps8 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 libpython3.10-minimal:amd64 (3.10.8-3) ... dpkg: warning: ignoring request to remove libpython3.10-stdlib which isn't installed dpkg: warning: ignoring request to remove librav1e0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libreadonly-perl which isn't installed dpkg: warning: ignoring request to remove libregexp-common-perl 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 Purging configuration files for libsensors-config (1:3.6.0-7.1) ... dpkg: warning: ignoring request to remove libsensors5 which isn't installed dpkg: warning: ignoring request to remove libset-intspan-perl which isn't installed dpkg: warning: ignoring request to remove libspiffy-perl which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed dpkg: warning: ignoring request to remove libstatistics-basic-perl which isn't installed dpkg: warning: ignoring request to remove libsvg-perl which isn't installed dpkg: warning: ignoring request to remove libsvtav1enc1 which isn't installed dpkg: warning: ignoring request to remove libswiss-perl which isn't installed dpkg: warning: ignoring request to remove libtext-format-perl which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed Purging configuration files for libtirpc-common (1.3.3+ds-1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libtry-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libx11-xcb1 which isn't installed dpkg: warning: ignoring request to remove libx265-199 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri2-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-glx0 which isn't installed dpkg: warning: ignoring request to remove libxcb-present0 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb-sync1 which isn't installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxml-libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed Purging configuration files for libxml-sax-perl (1.02+dfsg-3) ... dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxpm4 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libyuv0 which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed dpkg: warning: ignoring request to remove mash which isn't installed Purging configuration files for media-types (8.0.0) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-10) ... dpkg: warning: ignoring request to remove ncbi-tools-bin which isn't installed dpkg: warning: ignoring request to remove openjdk-17-jre which isn't installed Purging configuration files for openjdk-17-jre-headless:amd64 (17.0.5+8-2) ... Purging configuration files for openssl (3.0.7-1) ... Purging configuration files for parallel (20220722+ds-1) ... Purging configuration files for procps (2:3.3.17-7.1) ... dpkg: warning: ignoring request to remove prodigal which isn't installed dpkg: warning: ignoring request to remove prokka which isn't installed Purging configuration files for python3 (3.10.6-3) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3.10 which isn't installed Purging configuration files for python3.10-minimal (3.10.8-3) ... Purging configuration files for readline-common (8.2-1.2) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for shared-mime-info (2.2-1) ... Purging configuration files for sysstat (12.5.6-1+b1) ... Purging configuration files for ucf (3.0043) ... Purging configuration files for x11-common (1:7.7+23) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', 'adwaita-icon-theme', 'aragorn', 'at-spi2-common', 'bedtools', 'bowtie2', 'ca-certificates', 'ca-certificates-java', 'cd-hit', 'circos', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'hmmer', 'infernal', 'java-common', 'less', 'libabsl20220623:amd64', 'libaom3:amd64', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libavif15:amd64', 'libb-hooks-op-check-perl:amd64', 'libbio-perl-perl', 'libbio-searchio-hmmer-perl', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcapnp-0.9.1:amd64', 'libcarp-always-perl', 'libclone-perl:amd64', 'libconfig-general-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdatrie1:amd64', 'libdav1d6:amd64', 'libdbus-1-3:amd64', 'libde265-0:amd64', 'libdeflate0:amd64', 'libdevel-callchecker-perl', 'libdivsufsort3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdynaloader-functions-perl', 'libedit2:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfile-basedir-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgd-perl', 'libgd3:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-simple-perl', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgsl27:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libheif1:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libicu72:amd64', 'libio-all-perl', 'libio-string-perl', 'libipc-system-simple-perl', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblist-allutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmath-bezier-perl', 'libmath-round-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmpdec3:amd64', 'libmurmurhash2:amd64', 'libncbi6:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libparams-classify-perl:amd64', 'libparams-validate-perl:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'librav1e0:amd64', 'libreadline8:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libset-intspan-perl', 'libspiffy-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libstatistics-basic-perl', 'libsvg-perl', 'libsvtav1enc1:amd64', 'libswiss-perl', 'libtext-format-perl', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtry-tiny-perl', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libx265-199:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml2:amd64', 'libxpm4:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'mash', 'media-types', 'ncbi-blast+', 'ncbi-data', 'ncbi-tools-bin', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'parallel', 'procps', 'prodigal', 'prokka', 'python3', 'python3-minimal', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'shared-mime-info', 'sysstat', 'ucf', 'x11-common', 'xz-utils'] 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', 'plasmidid'] 1m28.5s DUMP: (Reading database ... 8604 files and directories currently installed.) Purging configuration files for plasmidid (1.6.5+dfsg-2) ... 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', 'plasmidid'] 1m28.5s INFO: Running scripts post_purge 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_purge_exceptions'] 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_purge_exceptions'] 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', '--pending'] 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--purge', '--pending'] 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--remove', '--pending'] 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg', '--remove', '--pending'] 1m28.5s INFO: Running scripts post_test 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_test_exceptions'] 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'tmp/scripts/post_test_exceptions'] 1m28.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m28.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-divert', '--list'] 1m28.9s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 1m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'dpkg-divert', '--list'] 1m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'clean'] 1m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9', 'apt-get', 'clean'] 1m28.9s DEBUG: Recording chroot state 1m29.4s INFO: Warning: Package purging left files on system: /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-dejavu-core, fonts-cmu /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-dejavu-core, fonts-cmu /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/cmu/ owned by: fonts-cmu /usr/share/fonts/truetype/cmu/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 1m29.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/shm'] 1m29.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/shm'] 1m29.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/console'] 1m29.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/console'] 1m29.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/ptmx'] 1m29.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/ptmx'] 1m29.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts'] 1m29.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/dev/pts'] 1m29.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/proc'] 1m29.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9/proc'] 1m29.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m29.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_pqsclg9'] 1m29.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_pqsclg9 1m30.0s INFO: PASS: Upgrading between Debian distributions. 1m30.0s INFO: PASS: All tests. 1m30.0s INFO: piuparts run ends. ret=0 End: 2022-11-24 21:29:43 GMT