Start: 2024-12-09 03:07:26 GMT [testing] Package: python3-mirtop Source: mirtop Version: 0.4.28-1 Installed-Size: 341 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-six, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython Description: annotate miRNAs with a standard mirna/isomir naming (Python 3) Homepage: https://github.com/miRTop/mirtop Description-md5: ba4c0b2482a45cbe63525d7bbfdc1194 Section: python Priority: optional Filename: pool/main/m/mirtop/python3-mirtop_0.4.28-1_all.deb Size: 61104 MD5sum: a7202688afc473d768268417dd654996 SHA256: f6d576195306326c391a976c152a929d9de51a4342b8b652302346b9ffcb2256 [sid] Package: python3-mirtop Source: mirtop Version: 0.4.28-2 Installed-Size: 341 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-six, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython Description: annotate miRNAs with a standard mirna/isomir naming (Python 3) Homepage: https://github.com/miRTop/mirtop Description-md5: ba4c0b2482a45cbe63525d7bbfdc1194 Section: python Priority: optional Filename: pool/main/m/mirtop/python3-mirtop_0.4.28-2_all.deb Size: 61112 MD5sum: 5ef8c9f4d6105abbfe6fae40c6d5aab7 SHA256: 4358b346db67c0815cc0eaddfb6831b9fa05d011851e66d6b1dc9bd8ddc69a46 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/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt python3-mirtop=0.4.28-2 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 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt python3-mirtop=0.4.28-2 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmppxvum3vm 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmppxvum3vm 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/8', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmppxvum3vm/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'update'] 0m3.0s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9342 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6270 kB] Fetched 15.8 MB in 2s (8827 kB/s) Reading package lists... 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'update'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-yf', 'dist-upgrade'] 0m4.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: bsdutils libblkid1 libdebconfclient0 libgpg-error0 libmount1 libsmartcols1 libuuid1 login mount util-linux 10 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2186 kB of archives. After this operation, 34.8 kB disk space will be freed. Get:1 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-12 [106 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-12 [36.0 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-12 [168 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-12 [199 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-12 [139 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-12 [1209 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-12 [155 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.40.2-12 [81.8 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.274 [10.1 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.51-2 [82.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2186 kB in 0s (36.8 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5142 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.2-12_amd64.deb ... Unpacking bsdutils (1:2.40.2-12) over (1:2.40.2-11) ... Setting up bsdutils (1:2.40.2-12) ... (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 ... 5142 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.2-12_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libuuid1:amd64 (2.40.2-12) ... (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 ... 5142 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.2-12_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libblkid1:amd64 (2.40.2-12) ... (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 ... 5142 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-12_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libmount1:amd64 (2.40.2-12) ... (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 ... 5142 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-12_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-12) over (2.40.2-11) ... Setting up libsmartcols1:amd64 (2.40.2-12) ... (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 ... 5142 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-12_amd64.deb ... Unpacking util-linux (2.40.2-12) over (2.40.2-11) ... Setting up util-linux (2.40.2-12) ... (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 ... 5139 files and directories currently installed.) Preparing to unpack .../mount_2.40.2-12_amd64.deb ... Unpacking mount (2.40.2-12) over (2.40.2-11) ... Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-12_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-12) over (1:4.16.0-2+really2.40.2-11) ... Preparing to unpack .../libdebconfclient0_0.274_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.274) over (0.273) ... Setting up libdebconfclient0:amd64 (0.274) ... (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 ... 5139 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.51-2_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-2) over (1.50-4) ... Setting up libgpg-error0:amd64 (1.51-2) ... Setting up mount (2.40.2-12) ... Setting up login (1:4.16.0-2+really2.40.2-12) ... Processing triggers for libc-bin (2.40-4) ... 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-yf', 'dist-upgrade'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.7s DUMP: d16da162ca5e664334aec549c5367142 - 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.7s INFO: Running scripts post_setup 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_dummy_users'] 0m5.4s 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 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_dummy_users'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_forbid_home'] 0m5.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_forbid_home'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.4s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_minimize'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_minimize'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_zz_backports'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_setup_zz_backports'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.4s DUMP: install ok installed apt apt 2.9.16 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-12 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.16 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblkid1:amd64 libblkid1 2.40.2-12 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-12 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-4 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-12 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-12 install ok installed login.defs login.defs 1:4.16.0-5 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-12 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-5 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-12 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m5.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 0m5.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 0m5.9s INFO: Running scripts is_testable 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/is_testable_uninstallable'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/is_testable_uninstallable'] 0m5.9s INFO: Running scripts pre_test 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_test_exceptions'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_test_exceptions'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_test_root_password'] 0m5.9s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_test_root_password'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'show', '--no-all-versions', 'python3-mirtop'] 0m6.1s DUMP: Package: python3-mirtop Source: mirtop Version: 0.4.28-1 Installed-Size: 341 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-six, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython Description-en: annotate miRNAs with a standard mirna/isomir naming (Python 3) The main goal of this project is to create a reflection group on metazoan microRNAs (miRNAs), open to all interested researchers, to identify blockages and develop standards and guidelines to improve miRNA research, resources and communication. This can go through the use of standardized file formats, gene and variants nomenclature guidelines, and advancements in miRNA biology understanding. The group will eventually also aim at expanding its breadth to the development of novel tools, data resources, and best-practices guidelines to benefit the scientific community by providing high confidence validated research and analysis strategies, regardless the expertise in this field. This package provides the Python modules for mirtop to execute correctly. Description-md5: ba4c0b2482a45cbe63525d7bbfdc1194 Homepage: https://github.com/miRTop/mirtop Section: python Priority: optional Filename: pool/main/m/mirtop/python3-mirtop_0.4.28-1_all.deb Size: 61104 MD5sum: a7202688afc473d768268417dd654996 SHA256: f6d576195306326c391a976c152a929d9de51a4342b8b652302346b9ffcb2256 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'show', '--no-all-versions', 'python3-mirtop'] 0m6.1s INFO: apt-cache knows about the following packages: python3-mirtop 0m6.1s INFO: Running scripts pre_install 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 0m6.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 0m6.2s DUMP: python3-mirtop: Installed: (none) Candidate: 0.4.28-1 Version table: 0.4.28-1 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop'] 1m3.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libdeflate0 libexpat1 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnsl2 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libtiff6 libtirpc-common libtirpc3t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-autocommand python3-biopython python3-cairo python3-chardet python3-dateutil python3-freetype python3-inflect python3-jaraco.context python3-jaraco.functools python3-minimal python3-more-itertools python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pybedtools python3-pysam python3-reportlab python3-rlpycairo python3-six python3-typeguard python3-typing-extensions python3-tz python3.12 python3.12-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre low-memory-monitor krb5-doc krb5-user liblcms2-utils python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise gcc gfortran python-numpy-doc python3-dev python3-pytest python-pandas-doc python3-statsmodels python-pil-doc python3-setuptools python-pybedtools-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm python3.12-venv python3.12-doc binutils binfmt-support readline-doc sgml-base-doc debhelper Recommended packages: ca-certificates libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules python-biopython-doc ncbi-blast+ python3-scipy python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba python3-olefile fonts-dejavu-extra The following NEW packages will be installed: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libdeflate0 libexpat1 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnsl2 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libtiff6 libtirpc-common libtirpc3t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-autocommand python3-biopython python3-cairo python3-chardet python3-dateutil python3-freetype python3-inflect python3-jaraco.context python3-jaraco.functools python3-minimal python3-mirtop python3-more-itertools python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pybedtools python3-pysam python3-reportlab python3-rlpycairo python3-six python3-typeguard python3-typing-extensions python3-tz python3.12 python3.12-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 107 newly installed, 0 to remove and 0 not upgraded. Need to get 70.8 MB of archives. After this operation, 285 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.8-1 [815 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.8-1 [2163 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:11 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.8-1 [1970 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.8-1 [677 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get:22 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 sgml-base all 1.31 [15.4 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libfontenc1 amd64 1:1.1.8-1+b1 [23.3 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get:34 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:36 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-4 [152 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.9.1-1 [119 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.9.1-1 [18.5 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libopenjp2-7 amd64 2.5.0-2+b4 [199 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.1-1+b2 [14.1 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libwebpdemux2 amd64 1.4.0-0.1+b1 [111 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libwebpmux3 amd64 1.4.0-0.1+b1 [123 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get:88 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:1.26.4+ds-12 [4738 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 python3-pil amd64 10.4.0-1+b1 [522 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 python3-cairo amd64 1.26.1-2+b1 [130 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 python3-freetype all 2.5.1-1 [89.3 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get:96 http://deb.debian.org/debian trixie/main amd64 python3-reportlab all 4.2.5-1 [1117 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 xml-core all 0.19 [20.1 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 python3-biopython amd64 1.84+dfsg-4+b1 [1651 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 python3-six all 1.17.0-1 [16.5 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 python3-pysam amd64 0.22.1+ds-2+b2 [4412 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 python3-pybedtools amd64 0.10.0-2 [12.3 MB] Get:104 http://deb.debian.org/debian trixie/main amd64 python3-tz all 2024.1-2 [30.9 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-5+b1 [7307 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 python3-pandas all 2.2.3+dfsg-5 [3096 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 python3-mirtop all 0.4.28-1 [61.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 70.8 MB in 1s (137 MB/s) Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5143 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.8-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.8-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.8-1_amd64.deb ... Unpacking python3.12-minimal (3.12.8-1) ... Setting up libpython3.12-minimal:amd64 (3.12.8-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-1) ... Selecting previously unselected package python3-minimal. (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 ... 5463 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../03-libncursesw6_6.5-2+b1_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2+b1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../05-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../06-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../07-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../08-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../09-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../10-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../11-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../12-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../13-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../14-libsqlite3-0_3.46.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.1-1) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.8-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.8-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.8-1_amd64.deb ... Unpacking python3.12 (3.12.8-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (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 ... 6023 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../01-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../02-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../03-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package libfontenc1:amd64. Preparing to unpack .../04-libfontenc1_1%3a1.1.8-1+b1_amd64.deb ... Unpacking libfontenc1:amd64 (1:1.1.8-1+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../05-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../06-libpng16-16t64_1.6.44-2_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.44-2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../07-libfreetype6_2.13.3+dfsg-1_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.3+dfsg-1) ... Selecting previously unselected package x11-common. Preparing to unpack .../08-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package xfonts-encodings. Preparing to unpack .../09-xfonts-encodings_1%3a1.0.4-2.2_all.deb ... Unpacking xfonts-encodings (1:1.0.4-2.2) ... Selecting previously unselected package xfonts-utils. Preparing to unpack .../10-xfonts-utils_1%3a7.7+7_amd64.deb ... Unpacking xfonts-utils (1:7.7+7) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../11-fonts-urw-base35_20200910-8_all.deb ... Unpacking fonts-urw-base35 (20200910-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../12-fontconfig-config_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1+b1) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../13-libatomic1_14.2.0-8_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-8) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../14-libblas3_3.12.0-4_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-4) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../15-libfontconfig1_2.15.0-1.1+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1+b1) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../16-libpixman-1-0_0.44.0-3_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.44.0-3) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../17-libxau6_1%3a1.0.11-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../18-libxdmcp6_1%3a1.1.5-1_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../19-libxcb1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../20-libx11-data_2%3a1.8.10-2_all.deb ... Unpacking libx11-data (2:1.8.10-2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../21-libx11-6_2%3a1.8.10-2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.10-2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../22-libxcb-render0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../23-libxcb-shm0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../24-libxext6_2%3a1.3.4-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../25-libxrender1_1%3a0.9.10-1.1+b2_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1+b2) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../26-libcairo2_1.18.2-2_amd64.deb ... Unpacking libcairo2:amd64 (1.18.2-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../27-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../28-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../29-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../30-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../31-libnghttp3-9_1.6.0-2_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.6.0-2) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../32-libngtcp2-16_1.9.1-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.9.1-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../33-libngtcp2-crypto-gnutls8_1.9.1-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../34-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../35-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../36-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../37-libcurl3t64-gnutls_8.11.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.11.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../38-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../39-libfribidi0_1.0.15-1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.15-1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../40-libgfortran5_14.2.0-8_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-8) ... Selecting previously unselected package libglib2.0-0t64:amd64. Preparing to unpack .../41-libglib2.0-0t64_2.82.2-3_amd64.deb ... Unpacking libglib2.0-0t64:amd64 (2.82.2-3) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../42-libgomp1_14.2.0-8_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-8) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../43-libgraphite2-3_1.3.14-2+b1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-2+b1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../44-libharfbuzz0b_10.0.1-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../45-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../46-libhts3t64_1.20+ds-2_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-2) ... Selecting previously unselected package libimagequant0:amd64. Preparing to unpack .../47-libimagequant0_2.18.0-1+b2_amd64.deb ... Unpacking libimagequant0:amd64 (2.18.0-1+b2) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../48-libjbig0_2.1-6.1+b2_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1+b2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../49-libjpeg62-turbo_1%3a2.1.5-3+b1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../50-liblapack3_3.12.0-4_amd64.deb ... Unpacking liblapack3:amd64 (3.12.0-4) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../51-liblcms2-2_2.16-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.16-2) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../52-liblerc4_4.0.0+ds-5_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-5) ... Selecting previously unselected package libopenjp2-7:amd64. Preparing to unpack .../53-libopenjp2-7_2.5.0-2+b4_amd64.deb ... Unpacking libopenjp2-7:amd64 (2.5.0-2+b4) ... Selecting previously unselected package libraqm0:amd64. Preparing to unpack .../54-libraqm0_0.10.1-1+b2_amd64.deb ... Unpacking libraqm0:amd64 (0.10.1-1+b2) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../55-libsharpyuv0_1.4.0-0.1+b1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../56-libwebp7_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebp7:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../57-libtiff6_4.5.1+git230720-5_amd64.deb ... Unpacking libtiff6:amd64 (4.5.1+git230720-5) ... Selecting previously unselected package libwebpdemux2:amd64. Preparing to unpack .../58-libwebpdemux2_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebpdemux2:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../59-libwebpmux3_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebpmux3:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../60-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../61-python3-more-itertools_10.5.0-1_all.deb ... Unpacking python3-more-itertools (10.5.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../62-python3-typing-extensions_4.12.2-2_all.deb ... Unpacking python3-typing-extensions (4.12.2-2) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../63-python3-typeguard_4.4.1-1_all.deb ... Unpacking python3-typeguard (4.4.1-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../64-python3-inflect_7.3.1-2_all.deb ... Unpacking python3-inflect (7.3.1-2) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../65-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../66-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../67-python3-pkg-resources_75.2.0-1_all.deb ... Unpacking python3-pkg-resources (75.2.0-1) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../68-python3-numpy_1%3a1.26.4+ds-12_amd64.deb ... Unpacking python3-numpy (1:1.26.4+ds-12) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../69-python3-chardet_5.2.0+dfsg-1_all.deb ... Unpacking python3-chardet (5.2.0+dfsg-1) ... Selecting previously unselected package python3-pil:amd64. Preparing to unpack .../70-python3-pil_10.4.0-1+b1_amd64.deb ... Unpacking python3-pil:amd64 (10.4.0-1+b1) ... Selecting previously unselected package python3-cairo. Preparing to unpack .../71-python3-cairo_1.26.1-2+b1_amd64.deb ... Unpacking python3-cairo (1.26.1-2+b1) ... Selecting previously unselected package python3-freetype. Preparing to unpack .../72-python3-freetype_2.5.1-1_all.deb ... Unpacking python3-freetype (2.5.1-1) ... Selecting previously unselected package python3-rlpycairo. Preparing to unpack .../73-python3-rlpycairo_0.3.0-3_all.deb ... Unpacking python3-rlpycairo (0.3.0-3) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../74-python3-reportlab_4.2.5-1_all.deb ... Unpacking python3-reportlab (4.2.5-1) ... Selecting previously unselected package xml-core. Preparing to unpack .../75-xml-core_0.19_all.deb ... Unpacking xml-core (0.19) ... Selecting previously unselected package w3c-sgml-lib. Preparing to unpack .../76-w3c-sgml-lib_1.3-3_all.deb ... Unpacking w3c-sgml-lib (1.3-3) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../77-python3-biopython_1.84+dfsg-4+b1_amd64.deb ... Unpacking python3-biopython (1.84+dfsg-4+b1) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../78-python3-dateutil_2.9.0-3_all.deb ... Unpacking python3-dateutil (2.9.0-3) ... Selecting previously unselected package python3-six. Preparing to unpack .../79-python3-six_1.17.0-1_all.deb ... Unpacking python3-six (1.17.0-1) ... Selecting previously unselected package python3-pysam. Preparing to unpack .../80-python3-pysam_0.22.1+ds-2+b2_amd64.deb ... Unpacking python3-pysam (0.22.1+ds-2+b2) ... Selecting previously unselected package python3-pybedtools. Preparing to unpack .../81-python3-pybedtools_0.10.0-2_amd64.deb ... Unpacking python3-pybedtools (0.10.0-2) ... Selecting previously unselected package python3-tz. Preparing to unpack .../82-python3-tz_2024.1-2_all.deb ... Unpacking python3-tz (2024.1-2) ... Selecting previously unselected package python3-pandas-lib:amd64. Preparing to unpack .../83-python3-pandas-lib_2.2.3+dfsg-5+b1_amd64.deb ... Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-5+b1) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../84-python3-pandas_2.2.3+dfsg-5_all.deb ... Unpacking python3-pandas (2.2.3+dfsg-5) ... Selecting previously unselected package python3-mirtop. Preparing to unpack .../85-python3-mirtop_0.4.28-1_all.deb ... Unpacking python3-mirtop (0.4.28-1) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libgomp1:amd64 (14.2.0-8) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up libfontenc1:amd64 (1:1.1.8-1+b1) ... Setting up libblas3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libimagequant0:amd64 (2.18.0-1+b2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libatomic1:amd64 (14.2.0-8) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libnghttp3-9:amd64 (1.6.0-2) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b4) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:amd64 (1.9.1-1) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libwebpmux3:amd64 (1.4.0-0.1+b1) ... Setting up readline-common (8.2-5) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Setting up liblapack3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libwebpdemux2:amd64 (1.4.0-0.1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up xml-core (0.19) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libraqm0:amd64 (0.10.1-1+b2) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up libpython3.12-stdlib:amd64 (3.12.8-1) ... Setting up python3.12 (3.12.8-1) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3 (3.12.6-1) ... Setting up python3-freetype (2.5.1-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.17.0-1) ... Setting up python3-pil:amd64 (10.4.0-1+b1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-dateutil (2.9.0-3) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-pysam (0.22.1+ds-2+b2) ... Setting up python3-cairo (1.26.1-2+b1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-12) ... Setting up python3-reportlab (4.2.5-1) ... Setting up python3-pybedtools (0.10.0-2) ... Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5+b1) ... Setting up python3-pandas (2.2.3+dfsg-5) ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.84+dfsg-4+b1) ... Setting up python3-mirtop (0.4.28-1) ... /usr/lib/python3/dist-packages/mirtop/sql/sql.py:478: SyntaxWarning: invalid escape sequence '\(' print("Usage: mirtop sql --create --gff --db \(Default: mirtop.db\)") 1m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop'] 1m3.5s INFO: Running scripts post_install 1m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m3.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m4.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m4.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmppxvum3vm to sid 1m4.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m4.2s INFO: Running scripts pre_distupgrade 1m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_exceptions'] 1m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_exceptions'] 1m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'update'] 1m7.5s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7346 kB] Fetched 17.6 MB in 2s (7517 kB/s) Reading package lists... 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'update'] 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-yf', 'dist-upgrade'] 1m10.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt bash libapt-pkg6.0t64 libharfbuzz0b libpcre2-8-0 libpython3-stdlib libunistring5 login.defs passwd python3 python3-minimal python3-mirtop 12 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6756 kB of archives. After this operation, 237 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.37-1 [1501 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.17 [1113 kB] Get:3 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.17 [1368 kB] Get:4 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get:5 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get:7 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.44-5 [275 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get:9 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-7 [185 kB] Get:10 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-7 [1233 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 10.1.0-1 [478 kB] Get:12 http://deb.debian.org/debian sid/main amd64 python3-mirtop all 0.4.28-2 [61.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6756 kB in 0s (60.6 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 ... 12552 files and directories currently installed.) Preparing to unpack .../bash_5.2.37-1_amd64.deb ... Unpacking bash (5.2.37-1) over (5.2.32-1+b2) ... Setting up bash (5.2.37-1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (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 ... 12551 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.17_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.17) over (2.9.16) ... Setting up libapt-pkg6.0t64:amd64 (2.9.17) ... (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 ... 12551 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.17_amd64.deb ... Unpacking apt (2.9.17) over (2.9.16) ... Setting up apt (2.9.17) ... (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 ... 12545 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) over (3.12.6-1) ... Setting up python3-minimal (3.12.7-1) ... (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 ... 12545 files and directories currently installed.) Preparing to unpack .../python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-1) ... Preparing to unpack .../libpcre2-8-0_10.44-5_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.44-5) over (10.44-4) ... Setting up libpcre2-8-0:amd64 (10.44-5) ... (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 ... 12545 files and directories currently installed.) Preparing to unpack .../libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) over (1.2-1+b1) ... Setting up libunistring5:amd64 (1.3-1) ... (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 ... 12544 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.16.0-7_all.deb ... Unpacking login.defs (1:4.16.0-7) over (1:4.16.0-5) ... Preparing to unpack .../passwd_1%3a4.16.0-7_amd64.deb ... Unpacking passwd (1:4.16.0-7) over (1:4.16.0-5) ... Preparing to unpack .../libharfbuzz0b_10.1.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (10.1.0-1) over (10.0.1-1) ... Preparing to unpack .../python3-mirtop_0.4.28-2_all.deb ... Unpacking python3-mirtop (0.4.28-2) over (0.4.28-1) ... Setting up login.defs (1:4.16.0-7) ... Setting up passwd (1:4.16.0-7) ... Setting up libharfbuzz0b:amd64 (10.1.0-1) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-mirtop (0.4.28-2) ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for debianutils (5.21) ... 1m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-yf', 'dist-upgrade'] 1m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m11.8s DUMP: 7832bbe41bfe1358b40deb5ab69612a8 - 1m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'show', '--no-all-versions', 'python3-mirtop'] 1m12.0s DUMP: Package: python3-mirtop Source: mirtop Version: 0.4.28-2 Installed-Size: 341 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-six, python3-pysam, python3-pybedtools, python3-pandas, python3-biopython Description-en: annotate miRNAs with a standard mirna/isomir naming (Python 3) The main goal of this project is to create a reflection group on metazoan microRNAs (miRNAs), open to all interested researchers, to identify blockages and develop standards and guidelines to improve miRNA research, resources and communication. This can go through the use of standardized file formats, gene and variants nomenclature guidelines, and advancements in miRNA biology understanding. The group will eventually also aim at expanding its breadth to the development of novel tools, data resources, and best-practices guidelines to benefit the scientific community by providing high confidence validated research and analysis strategies, regardless the expertise in this field. This package provides the Python modules for mirtop to execute correctly. Description-md5: ba4c0b2482a45cbe63525d7bbfdc1194 Homepage: https://github.com/miRTop/mirtop Section: python Priority: optional Filename: pool/main/m/mirtop/python3-mirtop_0.4.28-2_all.deb Size: 61112 MD5sum: 5ef8c9f4d6105abbfe6fae40c6d5aab7 SHA256: 4358b346db67c0815cc0eaddfb6831b9fa05d011851e66d6b1dc9bd8ddc69a46 1m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'show', '--no-all-versions', 'python3-mirtop'] 1m12.0s INFO: apt-cache knows about the following packages: python3-mirtop 1m12.0s INFO: Running scripts pre_install 1m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 1m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 1m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 1m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 1m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 1m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 1m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 1m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 1m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 1m12.2s 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: 1m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 1m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 1m12.2s DUMP: python3-mirtop: Installed: 0.4.28-2 Candidate: 0.4.28-2 Version table: *** 0.4.28-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 1m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop'] 1m12.8s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-mirtop is already the newest version (0.4.28-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop'] 1m12.8s INFO: Running scripts post_install 1m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m12.8s INFO: Running scripts post_distupgrade 1m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_exceptions'] 1m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_exceptions'] 1m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_zz_backports'] 1m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_distupgrade_zz_backports'] 1m12.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m13.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m13.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m14.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m14.7s INFO: Running scripts pre_install 1m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 1m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_database-server'] 1m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 1m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_exceptions'] 1m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 1m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_extras'] 1m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 1m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture'] 1m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 1m14.8s 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: 1m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy'] 1m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 1m14.9s DUMP: python3-mirtop: Installed: 0.4.28-2 Candidate: 0.4.28-2 Version table: *** 0.4.28-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-cache', 'policy', 'python3-mirtop'] 1m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop=0.4.28-2'] 1m15.4s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-mirtop is already the newest version (0.4.28-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m15.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', '-y', 'install', 'python3-mirtop=0.4.28-2'] 1m15.4s INFO: Running scripts post_install 1m15.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m15.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_install_exceptions'] 1m15.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m16.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 1m17.2s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', '-ac', '--ignore-obsolete'] 1m18.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', '-ac', '--ignore-obsolete'] 1m18.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m18.7s DUMP: 0.15.6 1m18.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m18.7s INFO: Running adequate version 0.15.6 now. 1m18.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'python3-mirtop'] 1m18.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'python3-mirtop'] 1m18.8s INFO: Running scripts pre_remove 1m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_exceptions'] 1m21.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/pre_remove_exceptions'] 1m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m21.2s DUMP: install ok installed apt apt 2.9.17 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.2-12 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1+b1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-8 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.17 install ok installed libatomic1:amd64 libatomic1 14.2.0-8 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblas3:amd64 libblas3 3.12.0-4 install ok installed libblkid1:amd64 libblkid1 2.40.2-12 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b6 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.11.0-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libdeflate0:amd64 libdeflate0 1.22-1 install ok installed libexpat1:amd64 libexpat1 2.6.4-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1+b1 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.8-1+b1 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.15-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-8 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.82.2-3 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-8 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2+b1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 10.1.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libhts3t64:amd64 libhts3t64 1.20+ds-2 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libimagequant0:amd64 libimagequant0 2.18.0-1+b2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-4 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblapack3:amd64 liblapack3 3.12.0-4 install ok installed liblcms2-2:amd64 liblcms2-2 2.16-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-12 install ok installed libncursesw6:amd64 libncursesw6 6.5-2+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.6.0-2 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.9.1-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.9.1-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b3 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.0-2+b4 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-5 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.44.0-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.44-2 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.12.7-1 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.8-1 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.8-1 install ok installed libraqm0:amd64 libraqm0 0.10.1-1+b2 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b5 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1+b1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-12 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3+b1 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1+b1 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.4.0-0.1+b1 install ok installed libwebpmux3:amd64 libwebpmux3 1.4.0-0.1+b1 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-2 install ok installed libx11-data libx11-data 2:1.8.10-2 install ok installed libxau6:amd64 libxau6 1:1.0.11-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b1 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b2 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-12 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed media-types media-types 10.1.0 install ok installed mount mount 2.40.2-12 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed netbase netbase 6.4 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl-base perl-base 5.40.0-8 install ok installed python3 python3 3.12.7-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-biopython python3-biopython 1.84+dfsg-4+b1 install ok installed python3-cairo python3-cairo 1.26.1-2+b1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-1 install ok installed python3-dateutil python3-dateutil 2.9.0-3 install ok installed python3-freetype python3-freetype 2.5.1-1 install ok installed python3-inflect python3-inflect 7.3.1-2 install ok installed python3-jaraco.context python3-jaraco.context 6.0.0-1 install ok installed python3-jaraco.functools python3-jaraco.functools 4.1.0-1 install ok installed python3-minimal python3-minimal 3.12.7-1 install ok installed python3-mirtop python3-mirtop 0.4.28-2 install ok installed python3-more-itertools python3-more-itertools 10.5.0-1 install ok installed python3-numpy python3-numpy 1:1.26.4+ds-12 install ok installed python3-pandas python3-pandas 2.2.3+dfsg-5 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.2.3+dfsg-5+b1 install ok installed python3-pil:amd64 python3-pil 10.4.0-1+b1 install ok installed python3-pkg-resources python3-pkg-resources 75.2.0-1 install ok installed python3-pybedtools python3-pybedtools 0.10.0-2 install ok installed python3-pysam python3-pysam 0.22.1+ds-2+b2 install ok installed python3-reportlab python3-reportlab 4.2.5-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-3 install ok installed python3-six python3-six 1.17.0-1 install ok installed python3-typeguard python3-typeguard 4.4.1-1 install ok installed python3-typing-extensions python3-typing-extensions 4.12.2-2 install ok installed python3-tz python3-tz 2024.1-2 install ok installed python3.12 python3.12 3.12.8-1 install ok installed python3.12-minimal python3.12-minimal 3.12.8-1 install ok installed readline-common readline-common 8.2-5 install ok installed sed sed 4.9-2 install ok installed sgml-base sgml-base 1.31 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-12 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xfonts-encodings xfonts-encodings 1:1.0.4-2.2 install ok installed xfonts-utils xfonts-utils 1:7.7+7 install ok installed xml-core xml-core 0.19 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 1m21.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'remove', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pybedtools', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'python3-mirtop'] 2m0.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libdeflate0 libexpat1 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnsl2 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libtiff6 libtirpc-common libtirpc3t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-autocommand python3-biopython python3-cairo python3-chardet python3-dateutil python3-freetype python3-inflect python3-jaraco.context python3-jaraco.functools python3-minimal python3-mirtop python3-more-itertools python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pybedtools python3-pysam python3-reportlab python3-rlpycairo python3-six python3-typeguard python3-typing-extensions python3-tz python3.12 python3.12-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 0 newly installed, 107 to remove and 0 not upgraded. After this operation, 285 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 ... 12544 files and directories currently installed.) Removing python3-mirtop (0.4.28-2) ... Removing python3-biopython (1.84+dfsg-4+b1) ... Removing python3-reportlab (4.2.5-1) ... Removing python3-rlpycairo (0.3.0-3) ... Removing python3-cairo (1.26.1-2+b1) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libfontconfig1:amd64 (2.15.0-1.1+b1) ... Removing fontconfig-config (2.15.0-1.1+b1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing fonts-urw-base35 (20200910-8) ... Removing python3-pil:amd64 (10.4.0-1+b1) ... Removing libraqm0:amd64 (0.10.1-1+b2) ... Removing libharfbuzz0b:amd64 (10.1.0-1) ... Removing libglib2.0-0t64:amd64 (2.82.2-3) ... Removing libatomic1:amd64 (14.2.0-8) ... Removing python3-pybedtools (0.10.0-2) ... Removing python3-pandas (2.2.3+dfsg-5) ... Removing python3-pandas-lib:amd64 (2.2.3+dfsg-5+b1) ... Removing python3-numpy (1:1.26.4+ds-12) ... Removing liblapack3:amd64 (3.12.0-4) ... Removing libblas3:amd64 (3.12.0-4) ... Removing xfonts-utils (1:7.7+7) ... Removing python3-freetype (2.5.1-1) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing python3-pysam (0.22.1+ds-2+b2) ... Removing libhts3t64:amd64 (1.20+ds-2) ... Removing libcurl3t64-gnutls:amd64 (8.11.0-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.22-1) ... Removing python3-six (1.17.0-1) ... Removing python3-chardet (5.2.0+dfsg-1) ... Removing python3-pkg-resources (75.2.0-1) ... Removing python3-tz (2024.1-2) ... Removing python3-inflect (7.3.1-2) ... Removing python3-typeguard (4.4.1-1) ... Removing libfontenc1:amd64 (1:1.1.8-1+b1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libgfortran5:amd64 (14.2.0-8) ... Removing libimagequant0:amd64 (2.18.0-1+b2) ... Removing libgomp1:amd64 (14.2.0-8) ... Removing libgraphite2-3:amd64 (1.3.14-2+b1) ... Removing libhtscodecs2:amd64 (1.6.1-1) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing libnghttp2-14:amd64 (1.64.0-1) ... Removing libnghttp3-9:amd64 (1.6.0-2) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Removing libngtcp2-16:amd64 (1.9.1-1) ... Removing libopenjp2-7:amd64 (2.5.0-2+b4) ... Removing libpixman-1-0:amd64 (0.44.0-3) ... Removing libpng16-16t64:amd64 (1.6.44-2) ... Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libwebpmux3:amd64 (1.4.0-0.1+b1) ... Removing libwebpdemux2:amd64 (1.4.0-0.1+b1) ... Removing libwebp7:amd64 (1.4.0-0.1+b1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Removing libssh2-1t64:amd64 (1.11.1-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b2) ... Removing libxext6:amd64 (2:1.3.4-1+b2) ... Removing libx11-6:amd64 (2:1.8.10-2) ... Removing libx11-data (2:1.8.10-2) ... Removing libxcb-shm0:amd64 (1.17.0-2+b1) ... Removing libxcb-render0:amd64 (1.17.0-2+b1) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.5-1) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-dateutil (2.9.0-3) ... Removing python3-jaraco.context (6.0.0-1) ... Removing python3-jaraco.functools (4.1.0-1) ... Removing python3-more-itertools (10.5.0-1) ... Removing python3-typing-extensions (4.12.2-2) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.19) ... Removing sgml-base (1.31) ... Removing xfonts-encodings (1:1.0.4-2.2) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing python3 (3.12.7-1) ... Removing python3.12 (3.12.8-1) ... Removing python3-minimal (3.12.7-1) ... Removing python3.12-minimal (3.12.8-1) ... Removing libexpat1:amd64 (2.6.4-1) ... Removing libpython3-stdlib:amd64 (3.12.7-1) ... Removing libpython3.12-stdlib:amd64 (3.12.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-3+b3) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-4) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libncursesw6:amd64 (6.5-2+b1) ... Removing libpython3.12-minimal:amd64 (3.12.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.2-5) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing readline-common (8.2-5) ... Processing triggers for libc-bin (2.40-4) ... 2m0.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'remove', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pybedtools', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'python3-mirtop'] 2m0.8s INFO: Running scripts post_remove 2m0.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_remove_exceptions'] 2m0.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_remove_exceptions'] 2m0.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pybedtools', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 2m1.1s DUMP: (Reading database ... 5193 files and directories currently installed.) Purging configuration files for fontconfig-config (2.15.0-1.1+b1) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed Purging configuration files for fonts-urw-base35 (20200910-8) ... dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfontenc1 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 libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.82.2-3) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove 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 liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 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 libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.8-1) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed Purging configuration files for media-types (10.1.0) ... Purging configuration files for netbase (6.4) ... Purging configuration files for python3 (3.12.7-1) ... dpkg: warning: ignoring request to remove python3-autocommand which isn't installed dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-cairo which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-freetype which isn't installed dpkg: warning: ignoring request to remove python3-inflect which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.context which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.functools which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pybedtools which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-rlpycairo which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-typeguard which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3.12 which isn't installed Purging configuration files for python3.12-minimal (3.12.8-1) ... Purging configuration files for readline-common (8.2-5) ... Purging configuration files for sgml-base (1.31) ... Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: ignoring request to remove xfonts-encodings which isn't installed Purging configuration files for xfonts-utils (1:7.7+7) ... Purging configuration files for xml-core (0.19) ... 2m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pybedtools', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-six', 'python3-typeguard', 'python3-typing-extensions', 'python3-tz', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 2m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', 'python3-mirtop'] 2m1.2s DUMP: dpkg: warning: ignoring request to remove python3-mirtop which isn't installed 2m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', 'python3-mirtop'] 2m1.2s INFO: Running scripts post_purge 2m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_purge_exceptions'] 2m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_purge_exceptions'] 2m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', '--pending'] 2m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--purge', '--pending'] 2m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--remove', '--pending'] 2m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg', '--remove', '--pending'] 2m1.2s INFO: Running scripts post_test 2m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_test_exceptions'] 2m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'tmp/scripts/post_test_exceptions'] 2m1.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 2m1.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 2m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-divert', '--list'] 2m1.5s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 2m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'dpkg-divert', '--list'] 2m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'clean'] 2m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmppxvum3vm', 'apt-get', 'clean'] 2m1.5s DEBUG: Recording chroot state 2m2.1s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-urw-base35, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-urw-base35, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned 2m2.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/shm'] 2m2.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/shm'] 2m2.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/console'] 2m2.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/console'] 2m2.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/ptmx'] 2m2.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/ptmx'] 2m2.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts'] 2m2.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/dev/pts'] 2m2.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/proc'] 2m2.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmppxvum3vm/proc'] 2m2.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 2m2.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmppxvum3vm'] 2m2.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmppxvum3vm 2m2.7s INFO: PASS: Upgrading between Debian distributions. 2m2.7s INFO: PASS: All tests. 2m2.7s INFO: piuparts run ends. ret=0 End: 2024-12-09 03:09:29 GMT