Start: 2024-02-19 21:58:39 GMT [testing] Package: presto Version: 0.7.1-1 Installed-Size: 370 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python3-presto (<= 0.6.0-1) Depends: python3:any, python3-presto Breaks: python3-presto (<= 0.6.0-1) Description: toolkit for processing B and T cell sequences Homepage: https://presto.readthedocs.io Description-md5: 1df336b8ef4efca6890d5fff54328f94 Section: python Priority: optional Filename: pool/main/p/presto/presto_0.7.1-1_all.deb Size: 75024 MD5sum: 93b818a6ed521b458990ef8525d7f046 SHA256: 4e7fb3d2150f3a275c7d3b0e25b24b31f0fdb53742718d2e8faa107f67f501c1 [sid] Package: presto Version: 0.7.2-1 Installed-Size: 898 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-presto Description: toolkit for processing B and T cell sequences Homepage: https://presto.readthedocs.io Description-md5: 1df336b8ef4efca6890d5fff54328f94 Section: python Priority: optional Filename: pool/main/p/presto/presto_0.7.2-1_all.deb Size: 239480 MD5sum: a5bceb56122d912e414313e07b56bc69 SHA256: 153e501919d7879843ec28b9e052801ab79c49e0220e3182d6e81cb823712e7d Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt presto=0.7.2-1 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 1.3.1~202401311821~1.3-2-g28295102 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt presto=0.7.2-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_3luvmdb 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_3luvmdb 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m2.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/proc'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/proc'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/ptmx'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/ptmx'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/console'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/console'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/shm'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/shm'] 0m2.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.5s DEBUG: Created policy-rc.d and chmodded it. 0m2.5s DEBUG: Created resolv.conf. 0m2.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_3luvmdb/tmp/scripts/ 0m2.5s INFO: Running scripts post_chroot_unpack 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'update'] 0m6.1s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [151 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8786 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [6109 kB] Fetched 15.0 MB in 3s (5964 kB/s) Reading package lists... 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'update'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-yf', 'dist-upgrade'] 0m9.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: base-files libc-bin libc6 libgnutls30 libsystemd0 libudev1 tar tzdata usr-is-merged 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6407 kB of archives. After this operation, 6144 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 base-files amd64 12.4+deb12u5 [70.8 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 tar amd64 1.34+dfsg-1.2+deb12u1 [836 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libc6 amd64 2.36-9+deb12u4 [2748 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libc-bin amd64 2.36-9+deb12u4 [606 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 libgnutls30 amd64 3.7.9-2+deb12u2 [1404 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libsystemd0 amd64 252.22-1~deb12u1 [331 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 252.22-1~deb12u1 [108 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 usr-is-merged all 37~deb12u1 [5616 B] Get:9 http://deb.debian.org/debian bookworm/main amd64 tzdata all 2024a-0+deb12u1 [297 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6407 kB in 0s (81.5 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 ... 6098 files and directories currently installed.) Preparing to unpack .../base-files_12.4+deb12u5_amd64.deb ... Unpacking base-files (12.4+deb12u5) over (12.4+deb12u4) ... Setting up base-files (12.4+deb12u5) ... Installing new version of config file /etc/debian_version ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../tar_1.34+dfsg-1.2+deb12u1_amd64.deb ... Unpacking tar (1.34+dfsg-1.2+deb12u1) over (1.34+dfsg-1.2) ... Setting up tar (1.34+dfsg-1.2+deb12u1) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../libc6_2.36-9+deb12u4_amd64.deb ... Unpacking libc6:amd64 (2.36-9+deb12u4) over (2.36-9+deb12u3) ... Setting up libc6:amd64 (2.36-9+deb12u4) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../libc-bin_2.36-9+deb12u4_amd64.deb ... Unpacking libc-bin (2.36-9+deb12u4) over (2.36-9+deb12u3) ... Setting up libc-bin (2.36-9+deb12u4) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.9-2+deb12u2_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.9-2+deb12u2) over (3.7.9-2+deb12u1) ... Setting up libgnutls30:amd64 (3.7.9-2+deb12u2) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.22-1~deb12u1_amd64.deb ... Unpacking libsystemd0:amd64 (252.22-1~deb12u1) over (252.19-1~deb12u1) ... Setting up libsystemd0:amd64 (252.22-1~deb12u1) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../libudev1_252.22-1~deb12u1_amd64.deb ... Unpacking libudev1:amd64 (252.22-1~deb12u1) over (252.19-1~deb12u1) ... Setting up libudev1:amd64 (252.22-1~deb12u1) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../usr-is-merged_37~deb12u1_all.deb ... Unpacking usr-is-merged (37~deb12u1) over (35) ... Setting up usr-is-merged (37~deb12u1) ... (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 ... 6098 files and directories currently installed.) Preparing to unpack .../tzdata_2024a-0+deb12u1_all.deb ... Unpacking tzdata (2024a-0+deb12u1) over (2023c-5+deb12u1) ... Setting up tzdata (2024a-0+deb12u1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Feb 19 21:58:49 UTC 2024. Universal Time is now: Mon Feb 19 21:58:49 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Processing triggers for libc-bin (2.36-9+deb12u4) ... 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-yf', 'dist-upgrade'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.8s DUMP: 0942a352c5bc637c4fdbc12bf31cd5ba - 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.8s INFO: Running scripts post_setup 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_dummy_users'] 0m10.7s 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 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_dummy_users'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_forbid_home'] 0m10.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_forbid_home'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.7s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_minimize'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_minimize'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_zz_backports'] 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_setup_zz_backports'] 0m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.8s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u5 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+b1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+b1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u4 install ok installed libc6:amd64 libc6 2.36-9+deb12u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u2 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+b1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+b1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.22-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.22-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+b1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+b1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m10.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 0m11.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 0m11.3s INFO: Running scripts is_testable 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/is_testable_uninstallable'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/is_testable_uninstallable'] 0m11.3s INFO: Running scripts pre_test 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_test_exceptions'] 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_test_exceptions'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_test_root_password'] 0m11.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_test_root_password'] 0m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'show', '--no-all-versions', 'presto'] 0m11.6s DUMP: Package: presto Version: 0.7.1-1 Installed-Size: 370 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python3-presto (<= 0.6.0-1) Depends: python3:any, python3-presto Breaks: python3-presto (<= 0.6.0-1) Description-en: toolkit for processing B and T cell sequences pRESTO is a toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires. . Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of lymphocyte repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. The REpertoire Sequencing TOolkit (pRESTO) is composed of a suite of utilities to handle all stages of sequence processing prior to germline segment assignment. pRESTO is designed to handle either single reads or paired-end reads. It includes features for quality control, primer masking, annotation of reads with sequence embedded barcodes, generation of unique molecular identifier (UMI) consensus sequences, assembly of paired-end reads and identification of duplicate sequences. Numerous options for sequence sorting, sampling and conversion operations are also included. Description-md5: 1df336b8ef4efca6890d5fff54328f94 Homepage: https://presto.readthedocs.io Section: python Priority: optional Filename: pool/main/p/presto/presto_0.7.1-1_all.deb Size: 75024 MD5sum: 93b818a6ed521b458990ef8525d7f046 SHA256: 4e7fb3d2150f3a275c7d3b0e25b24b31f0fdb53742718d2e8faa107f67f501c1 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'show', '--no-all-versions', 'presto'] 0m11.6s INFO: apt-cache knows about the following packages: presto 0m11.6s INFO: Running scripts pre_install 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 0m11.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.5,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m11.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 0m11.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 0m11.7s DUMP: presto: Installed: (none) Candidate: 0.7.1-1 Version table: 0.7.1-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m11.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 0m11.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto'] 1m36.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-12 fonts-urw-base35 g++ g++-12 gcc gcc-12 libasan8 libatomic1 libbinutils libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libdeflate0 libexpat1 libexpat1-dev libfontenc1 libfreetype6 libfribidi0 libgcc-12-dev libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libimagequant0 libisl23 libitm1 libjansson4 libjbig0 libjpeg62-turbo libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 libmpfr6 libncursesw6 libnsl-dev libnsl2 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libperl5.36 libpng16-16 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libquadmath0 libraqm0 libreadline8 libsqlite3-0 libssl3 libstdc++-12-dev libtiff6 libtirpc-common libtirpc-dev libtirpc3 libtsan2 libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxsimd-dev linux-libc-dev mailcap media-types mime-support perl perl-modules-5.36 python3 python3-all python3-all-dev python3-beniget python3-biopython python3-dateutil python3-decorator python3-dev python3-distutils python3-gast python3-lib2to3 python3-minimal python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-ply python3-presto python3-pythran python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-six python3-tz python3.11 python3.11-dev python3.11-minimal readline-common rpcsvc-proto sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core zlib1g-dev Suggested packages: binutils-doc cpp-doc gcc-12-locales cpp-12-doc fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre g++-multilib g++-12-multilib gcc-12-doc gcc-multilib make manpages-dev autoconf automake libtool flex bison gdb gcc-doc gcc-12-multilib libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev glibc-doc gdbm-l10n low-memory-monitor krb5-doc krb5-user liblcms2-utils sensible-utils libstdc++-12-doc libxsimd-doc perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl 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 raxml samtools t-coffee wise gfortran python3-pytest python-pandas-doc python3-statsmodels python-pil-doc python3-setuptools python-ply-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python-scipy-doc python3.11-venv python3.11-doc binfmt-support readline-doc sgml-base-doc debhelper Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs javascript-common krb5-locales libgpm2 bzip2 file xz-utils netbase python-biopython-doc ncbi-blast+ python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba python3-olefile ca-certificates The following NEW packages will be installed: binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-12 fonts-urw-base35 g++ g++-12 gcc gcc-12 libasan8 libatomic1 libbinutils libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libdeflate0 libexpat1 libexpat1-dev libfontenc1 libfreetype6 libfribidi0 libgcc-12-dev libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libimagequant0 libisl23 libitm1 libjansson4 libjbig0 libjpeg62-turbo libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 libmpfr6 libncursesw6 libnsl-dev libnsl2 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libperl5.36 libpng16-16 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libquadmath0 libraqm0 libreadline8 libsqlite3-0 libssl3 libstdc++-12-dev libtiff6 libtirpc-common libtirpc-dev libtirpc3 libtsan2 libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxsimd-dev linux-libc-dev mailcap media-types mime-support perl perl-modules-5.36 presto python3 python3-all python3-all-dev python3-beniget python3-biopython python3-dateutil python3-decorator python3-dev python3-distutils python3-gast python3-lib2to3 python3-minimal python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-ply python3-presto python3-pythran python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-six python3-tz python3.11 python3.11-dev python3.11-minimal readline-common rpcsvc-proto sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core zlib1g-dev 0 upgraded, 141 newly installed, 0 to remove and 0 not upgraded. Need to get 163 MB of archives. After this operation, 827 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.11-1~deb12u2 [2019 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 mailcap all 3.70+nmu1 [32.0 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 mime-support all 3.66 [10.9 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:18 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:29 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 binutils-common amd64 2.40-2 [2487 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libbinutils amd64 2.40-2 [572 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libctf-nobfd0 amd64 2.40-2 [153 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libctf0 amd64 2.40-2 [89.8 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libgprofng0 amd64 2.40-2 [812 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libjansson4 amd64 2.14-2 [40.8 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 binutils-x86-64-linux-gnu amd64 2.40-2 [2246 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 binutils amd64 2.40-2 [65.0 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libisl23 amd64 0.25-1.1 [683 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libmpfr6 amd64 4.2.0-1 [701 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libmpc3 amd64 1.3.1-1 [51.5 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 cpp-12 amd64 12.2.0-14 [9764 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 cpp amd64 4:12.2.0-3 [6836 B] Get:44 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libcc1-0 amd64 12.2.0-14 [41.7 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:56 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 gcc-12 amd64 12.2.0-14 [19.3 MB] Get:63 http://deb.debian.org/debian bookworm/main amd64 gcc amd64 4:12.2.0-3 [5216 B] Get:64 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-9+deb12u4 [45.4 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 linux-libc-dev amd64 6.1.76-1 [1930 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libcrypt-dev amd64 1:4.4.33-2 [118 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libc6-dev amd64 2.36-9+deb12u4 [1897 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 g++-12 amd64 12.2.0-14 [10.7 MB] Get:73 http://deb.debian.org/debian bookworm/main amd64 g++ amd64 4:12.2.0-3 [1356 B] Get:74 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get:77 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libopenblas0-pthread amd64 0.3.21+ds-4 [6709 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1 [28.9 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libopenblas0 amd64 0.3.21+ds-4 [32.6 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libopenblas-pthread-dev amd64 0.3.21+ds-4 [4971 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libopenblas-dev amd64 0.3.21+ds-4 [44.9 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-2 [189 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.2-6 [1988 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-dev amd64 3.11.2-6 [4738 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libpython3-dev amd64 3.11.2-1+b1 [9572 B] Get:104 http://deb.debian.org/debian bookworm/main amd64 libpython3-all-dev amd64 3.11.2-1+b1 [1068 B] Get:105 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4.1 [10.6 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.4-0.2+deb12u1 [99.4 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.4-0.2+deb12u1 [109 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libxsimd-dev amd64 8.1.0-7 [88.8 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 python3-renderpm amd64 3.6.12-1+b1 [79.2 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab-accel amd64 3.6.12-1+b1 [38.6 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.4.0-1.1+b1 [472 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab all 3.6.12-1 [564 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 python3-biopython amd64 1.80+dfsg-4+b1 [1593 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 python3-dateutil all 2.8.2-2 [78.3 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 python3-tz all 2022.7.1-4 [30.1 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 python3-pandas-lib amd64 1.5.3+dfsg-2 [3499 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 python3-pandas all 1.5.3+dfsg-2 [2885 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-3 [131 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.11.2-1+b1 [1056 B] Get:132 http://deb.debian.org/debian bookworm/main amd64 python3.11-dev amd64 3.11.2-6 [615 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 python3-dev amd64 3.11.2-1+b1 [26.2 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 python3-all-dev amd64 3.11.2-1+b1 [1072 B] Get:135 http://deb.debian.org/debian bookworm/main amd64 python3-gast all 0.5.2-2 [9364 B] Get:136 http://deb.debian.org/debian bookworm/main amd64 python3-beniget all 0.4.1-3 [9920 B] Get:137 http://deb.debian.org/debian bookworm/main amd64 python3-ply all 3.11-5 [65.8 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 python3-pythran amd64 0.11.0+ds-7 [427 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 python3-scipy amd64 1.10.1-2 [15.2 MB] Get:140 http://deb.debian.org/debian bookworm/main amd64 python3-presto all 0.7.1-1 [53.5 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 presto all 0.7.1-1 [75.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 163 MB in 1s (139 MB/s) Selecting previously unselected package perl-modules-5.36. (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 ... 6100 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Selecting previously unselected package python3.11-minimal. Preparing to unpack .../8-python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libssl3:amd64 (3.0.11-1~deb12u2) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... 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 ... 8432 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../02-mailcap_3.70+nmu1_all.deb ... Unpacking mailcap (3.70+nmu1) ... 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Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.20.1-2+deb12u1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.3+ds-1_all.deb ... Unpacking libtirpc-common (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3:amd64. Preparing to unpack .../11-libtirpc3_1.3.3+ds-1_amd64.deb ... Unpacking libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../14-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../15-libsqlite3-0_3.40.1-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.40.1-2) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../16-libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../17-python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../18-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... 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 ... 8964 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package binutils-common:amd64. Preparing to unpack .../002-binutils-common_2.40-2_amd64.deb ... Unpacking binutils-common:amd64 (2.40-2) ... Selecting previously unselected package libbinutils:amd64. Preparing to unpack .../003-libbinutils_2.40-2_amd64.deb ... Unpacking libbinutils:amd64 (2.40-2) ... Selecting previously unselected package libctf-nobfd0:amd64. Preparing to unpack .../004-libctf-nobfd0_2.40-2_amd64.deb ... Unpacking libctf-nobfd0:amd64 (2.40-2) ... Selecting previously unselected package libctf0:amd64. Preparing to unpack .../005-libctf0_2.40-2_amd64.deb ... Unpacking libctf0:amd64 (2.40-2) ... Selecting previously unselected package libgprofng0:amd64. Preparing to unpack .../006-libgprofng0_2.40-2_amd64.deb ... Unpacking libgprofng0:amd64 (2.40-2) ... Selecting previously unselected package libjansson4:amd64. Preparing to unpack .../007-libjansson4_2.14-2_amd64.deb ... Unpacking libjansson4:amd64 (2.14-2) ... Selecting previously unselected package binutils-x86-64-linux-gnu. Preparing to unpack .../008-binutils-x86-64-linux-gnu_2.40-2_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.40-2) ... Selecting previously unselected package binutils. Preparing to unpack .../009-binutils_2.40-2_amd64.deb ... Unpacking binutils (2.40-2) ... Selecting previously unselected package libisl23:amd64. Preparing to unpack .../010-libisl23_0.25-1.1_amd64.deb ... Unpacking libisl23:amd64 (0.25-1.1) ... Selecting previously unselected package libmpfr6:amd64. Preparing to unpack .../011-libmpfr6_4.2.0-1_amd64.deb ... Unpacking libmpfr6:amd64 (4.2.0-1) ... Selecting previously unselected package libmpc3:amd64. Preparing to unpack .../012-libmpc3_1.3.1-1_amd64.deb ... Unpacking libmpc3:amd64 (1.3.1-1) ... Selecting previously unselected package cpp-12. Preparing to unpack .../013-cpp-12_12.2.0-14_amd64.deb ... Unpacking cpp-12 (12.2.0-14) ... Selecting previously unselected package cpp. Preparing to unpack .../014-cpp_4%3a12.2.0-3_amd64.deb ... Unpacking cpp (4:12.2.0-3) ... Selecting previously unselected package libfontenc1:amd64. Preparing to unpack .../015-libfontenc1_1%3a1.1.4-1_amd64.deb ... Unpacking libfontenc1:amd64 (1:1.1.4-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../016-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../017-libpng16-16_1.6.39-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../018-libfreetype6_2.12.1+dfsg-5_amd64.deb ... Unpacking libfreetype6:amd64 (2.12.1+dfsg-5) ... Selecting previously unselected package x11-common. Preparing to unpack .../019-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package xfonts-encodings. Preparing to unpack .../020-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. 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Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up liblerc4:amd64 (4.0.0+ds-2) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up binutils-common:amd64 (2.40-2) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libdeflate0:amd64 (1.14-1) ... Setting up linux-libc-dev:amd64 (6.1.76-1) ... Setting up libctf-nobfd0:amd64 (2.40-2) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libjansson4:amd64 (2.14-2) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libxsimd-dev:amd64 (8.1.0-7) ... Setting up libfontenc1:amd64 (1:1.1.4-1) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libblas3:amd64 (3.11.0-2) ... 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 rpcsvc-proto (1.4.3-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libmpfr6:amd64 (4.2.0-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libquadmath0:amd64 (12.2.0-14) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libmpc3:amd64 (1.3.1-1) ... Setting up libatomic1:amd64 (12.2.0-14) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Setting up libubsan1:amd64 (12.2.0-14) ... Setting up libcrypt-dev:amd64 (1:4.4.33-2) ... Setting up libtiff6:amd64 (4.5.0-6+deb12u1) ... Setting up libasan8:amd64 (12.2.0-14) ... Setting up libopenjp2-7:amd64 (2.5.0-2) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up libtsan2:amd64 (12.2.0-14) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libbinutils:amd64 (2.40-2) ... Setting up libisl23:amd64 (0.25-1.1) ... Setting up libc-dev-bin (2.36-9+deb12u4) ... Setting up libwebpmux3:amd64 (1.2.4-0.2+deb12u1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up readline-common (8.2-1.3) ... Setting up libcc1-0:amd64 (12.2.0-14) ... Setting up liblsan0:amd64 (12.2.0-14) ... Setting up libitm1:amd64 (12.2.0-14) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libctf0:amd64 (2.40-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... 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 cpp-12 (12.2.0-14) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libopenblas0-pthread:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode Setting up libwebpdemux2:amd64 (1.2.4-0.2+deb12u1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libgprofng0:amd64 (2.40-2) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up libgcc-12-dev:amd64 (12.2.0-14) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up libopenblas0:amd64 (0.3.21+ds-4) ... Setting up cpp (4:12.2.0-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1) ... Setting up binutils-x86-64-linux-gnu (2.40-2) ... Setting up libopenblas-pthread-dev:amd64 (0.3.21+ds-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/x86_64-linux-gnu/libopenblas.so (libopenblas.so-x86_64-linux-gnu) in auto mode Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up binutils (2.40-2) ... Setting up xfonts-utils (1:7.7+6) ... Setting up libopenblas-dev:amd64 (0.3.21+ds-4) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up libtirpc-dev:amd64 (1.3.3+ds-1) ... Setting up gcc-12 (12.2.0-14) ... Setting up libraqm0:amd64 (0.7.0-4.1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up mailcap (3.70+nmu1) ... Setting up mime-support (3.66) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up gcc (4:12.2.0-3) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.36-9+deb12u4) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libpython3.11:amd64 (3.11.2-6) ... Setting up libstdc++-12-dev:amd64 (12.2.0-14) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-tz (2022.7.1-4) ... Setting up python3-six (1.16.0-4) ... Setting up python3-pil:amd64 (9.4.0-1.1+b1) ... Setting up python3-decorator (5.1.1-3) ... Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up python3-reportlab-accel:amd64 (3.6.12-1+b1) ... Setting up python3-reportlab (3.6.12-1) ... Setting up zlib1g-dev:amd64 (1:1.2.13.dfsg-1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up g++-12 (12.2.0-14) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up python3-renderpm:amd64 (3.6.12-1+b1) ... Setting up python3-ply (3.11-5) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-beniget (0.4.1-3) ... Setting up libpython3.11-dev:amd64 (3.11.2-6) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up g++ (4:12.2.0-3) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libpython3-dev:amd64 (3.11.2-1+b1) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-pandas-lib:amd64 (1.5.3+dfsg-2) ... Setting up python3-pandas (1.5.3+dfsg-2) ... Setting up libpython3-all-dev:amd64 (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-pythran (0.11.0+ds-7) ... Setting up python3-scipy (1.10.1-2) ... Processing triggers for libc-bin (2.36-9+deb12u4) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.80+dfsg-4+b1) ... Setting up python3-presto (0.7.1-1) ... Setting up presto (0.7.1-1) ... 1m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto'] 1m36.9s INFO: Running scripts post_install 1m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 1m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 1m36.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 1m39.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 1m39.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp_3luvmdb to sid 1m39.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m39.1s INFO: Running scripts pre_distupgrade 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_exceptions'] 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_exceptions'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'update'] 1m43.5s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9742 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7147 kB] Fetched 17.1 MB in 3s (5287 kB/s) Reading package lists... 1m43.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'update'] 1m43.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-yf', 'dist-upgrade'] 3m13.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libboost-dev libboost1.83-dev libopenblas-dev libopenblas-pthread-dev libopenblas0 libperl5.36 libpython3-all-dev libpython3.12 libpython3.12-dev libxsimd-dev perl-modules-5.36 python3-all python3-all-dev python3-beniget python3-gast python3-ply python3-pythran python3.12-dev xtl-dev Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libboost1.74-dev python3-renderpm python3-reportlab-accel The following NEW packages will be installed: cd-hit cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-13 gcc-13-base gcc-13-x86-64-linux-gnu gcc-14-base gcc-x86-64-linux-gnu libboost1.83-dev libcairo2 libfontconfig1 libgcc-13-dev libhwasan0 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libperl5.38 libpixman-1-0 libpython3.12 libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libsframe1 libsharpyuv0 libstdc++-13-dev libunistring5 libx11-6 libx11-data libxcb-render0 libxcb-shm0 libxext6 libxrender1 ncbi-blast+ ncbi-data netbase perl-modules-5.38 python3-cairo python3-chardet python3-freetype python3-packaging python3-rlpycairo python3-setuptools python3.12 python3.12-dev python3.12-minimal vsearch xtl-dev The following packages will be upgraded: adduser apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils coreutils cpp cpp-12 dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils g++ g++-12 gcc gcc-12 gcc-12-base gpgv grep hostname init-system-helpers libacl1 libapt-pkg6.0 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblas3 libblkid1 libboost-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdeflate0 libexpat1 libexpat1-dev libext2fs2 libffi8 libfontenc1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhogweed6 libidn2-0 libimagequant0 libisl23 libitm1 libjansson4 libjbig0 libjpeg62-turbo libjs-sphinxdoc libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libmpc3 libmpfr6 libncursesw6 libnettle8 libnsl-dev libnsl2 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpng16-16 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libquadmath0 libraqm0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd0 libtasn1-6 libtiff6 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan2 libubsan1 libudev1 libuuid1 libwebp7 libwebpdemux2 libwebpmux3 libxsimd-dev libxxhash0 libzstd1 linux-libc-dev login logsave mawk media-types mount ncurses-base ncurses-bin passwd perl perl-base presto python3 python3-all python3-all-dev python3-biopython python3-dateutil python3-decorator python3-dev python3-distutils python3-lib2to3 python3-minimal python3-numpy python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-ply python3-presto python3-pythran python3-reportlab python3-scipy python3-tz python3.11 python3.11-dev python3.11-minimal readline-common sed sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra xml-core zlib1g zlib1g-dev 205 upgraded, 56 newly installed, 3 to remove and 0 not upgraded. Need to get 282 MB of archives. After this operation, 526 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13 [70.6 kB] Get:2 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.16 [88.9 kB] Get:3 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.21-2 [1492 kB] Get:4 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.39.3-6 [96.9 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-3 [66.9 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.36-4 [119 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.37-15 [1906 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.37-15 [46.9 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1 [10.7 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libtirpc-dev amd64 1.3.4+ds-1 [188 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-5+b1 [135 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.20.1-5+b1 [333 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.20.1-5+b1 [80.0 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.20.1-5+b1 [33.2 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.0-2+b1 [20.1 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:17 http://deb.debian.org/debian sid/main amd64 libssl3 amd64 3.1.5-1 [2063 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libtirpc3 amd64 1.3.4+ds-1 [82.1 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-3 [40.0 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.36-4 [89.8 kB] Get:21 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.6.15-2 [2247 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.37-15 [2750 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.37-15 [602 kB] Get:24 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14-20240201-3 [42.3 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14-20240201-3 [71.6 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:27 http://deb.debian.org/debian sid/main amd64 coreutils amd64 9.4-3+b1 [2950 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.5+dfsg2-2 [295 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14-20240201-3 [714 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-5+b2 [38.2 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.47-3 [77.8 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.10.3-2 [708 kB] Get:33 http://deb.debian.org/debian sid/main amd64 liblz4-1 amd64 1.9.4-1+b2 [61.6 kB] Get:34 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.4.5-0.3 [240 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 255.3-2 [362 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 255.3-2 [124 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:39 http://deb.debian.org/debian sid/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3+b1 [919 kB] Get:40 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.3.dfsg-3+b1 [87.8 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0 amd64 2.7.11 [981 kB] Get:42 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:43 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.4 [1509 kB] Get:44 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-6 [92.1 kB] Get:45 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:46 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.9.0-5 [636 kB] Get:47 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-4 [431 kB] Get:48 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:49 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.13+dfsg1-4 [616 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.4+20240113-1 [135 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.4+20240113-1 [342 kB] Get:52 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.4+20240113-1 [431 kB] Get:53 http://deb.debian.org/debian sid/main amd64 perl-modules-5.38 all 5.38.2-3 [2899 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libperl5.38 amd64 5.38.2-3 [4275 kB] Get:55 http://deb.debian.org/debian sid/main amd64 perl amd64 5.38.2-3 [236 kB] Get:56 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.38.2-3 [1643 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libdb5.3 amd64 5.3.28+dfsg2-4+b1 [697 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libgdbm6 amd64 1.23-5+b1 [72.8 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4 amd64 1.23-5+b1 [48.5 kB] Get:60 http://deb.debian.org/debian sid/main amd64 sed amd64 4.9-2 [329 kB] Get:61 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.39.3-6 [159 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-4 [261 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.5-2 [74.8 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.39.3-6 [190 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:3.1.2-2 [11.3 kB] Get:66 http://deb.debian.org/debian sid/main amd64 libcap-ng0 amd64 0.8.4-2 [16.9 kB] Get:67 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:3.1.2-2 [48.4 kB] Get:68 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.39.3-6 [117 kB] Get:69 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.39.3-6 [155 kB] Get:70 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.39.3-6 [1230 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libnettle8 amd64 3.9.1-2 [295 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.4-2 [23.5 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.3-4 [418 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.1-2 [421 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libhogweed6 amd64 3.9.1-2 [327 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libgnutls30 amd64 3.8.3-1 [1425 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.271 [9940 B] Get:80 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.3 [50.8 kB] Get:81 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.86 [119 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.5.2-9.1+b1 [65.8 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:84 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.5-2 [277 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.5-1+b2 [90.3 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.2-9.1+b1 [50.1 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.2-9.1+b1 [265 kB] Get:88 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.13+dfsg1-4 [973 kB] Get:89 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:90 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.2.40-1.1+b1 [649 kB] Get:91 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:92 http://deb.debian.org/debian sid/main amd64 libseccomp2 amd64 2.5.5-1 [47.0 kB] Get:93 http://deb.debian.org/debian sid/main amd64 apt amd64 2.7.11 [1364 kB] Get:94 http://deb.debian.org/debian sid/main amd64 usr-is-merged all 39 [5572 B] Get:95 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:96 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.4+20240113-1 [268 kB] Get:97 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.08-6 [32.1 kB] Get:98 http://deb.debian.org/debian sid/main amd64 gcc-13-base amd64 13.2.0-13 [42.5 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14-20240201-3 [136 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 14-20240201-3 [25.8 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14-20240201-3 [9292 B] Get:102 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 14-20240201-3 [2721 kB] Get:103 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 14-20240201-3 [1199 kB] Get:104 http://deb.debian.org/debian sid/main amd64 libisl23 amd64 0.26-3+b2 [652 kB] Get:105 http://deb.debian.org/debian sid/main amd64 libmpfr6 amd64 4.2.1-1 [713 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libmpc3 amd64 1.3.1-1+b2 [52.1 kB] Get:107 http://deb.debian.org/debian sid/main amd64 g++-12 amd64 12.3.0-14 [10.8 MB] Get:108 http://deb.debian.org/debian sid/main amd64 gcc-12 amd64 12.3.0-14 [19.5 MB] Get:109 http://deb.debian.org/debian sid/main amd64 cpp-12 amd64 12.3.0-14 [9858 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 14-20240201-3 [1070 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libstdc++-12-dev amd64 12.3.0-14 [2069 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14-20240201-3 [147 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14-20240201-3 [836 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libcc1-0 amd64 14-20240201-3 [42.2 kB] Get:115 http://deb.debian.org/debian sid/main amd64 libgcc-12-dev amd64 12.3.0-14 [2432 kB] Get:116 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 14-20240201-3 [2454 kB] Get:117 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.3.0-14 [41.2 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libgprofng0 amd64 2.42-2 [771 kB] Get:119 http://deb.debian.org/debian sid/main amd64 libctf0 amd64 2.42-2 [87.0 kB] Get:120 http://deb.debian.org/debian sid/main amd64 libctf-nobfd0 amd64 2.42-2 [151 kB] Get:121 http://deb.debian.org/debian sid/main amd64 binutils-x86-64-linux-gnu amd64 2.42-2 [2209 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libbinutils amd64 2.42-2 [520 kB] Get:123 http://deb.debian.org/debian sid/main amd64 binutils amd64 2.42-2 [80.4 kB] Get:124 http://deb.debian.org/debian sid/main amd64 binutils-common amd64 2.42-2 [2537 kB] Get:125 http://deb.debian.org/debian sid/main amd64 libjansson4 amd64 2.14-2+b2 [39.9 kB] Get:126 http://deb.debian.org/debian sid/main amd64 libsframe1 amd64 2.42-2 [75.5 kB] Get:127 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 14-20240201-3 [1484 kB] Get:128 http://deb.debian.org/debian sid/main amd64 libgcc-13-dev amd64 13.2.0-13 [2538 kB] Get:129 http://deb.debian.org/debian sid/main amd64 libstdc++-13-dev amd64 13.2.0-13 [2208 kB] Get:130 http://deb.debian.org/debian sid/main amd64 libboost-dev amd64 1.83.0.2 [3552 B] Get:131 http://deb.debian.org/debian sid/main amd64 libboost1.83-dev amd64 1.83.0-2+b2 [10.6 MB] Get:132 http://deb.debian.org/debian sid/main amd64 python3-biopython amd64 1.81+dfsg-3 [1625 kB] Get:133 http://deb.debian.org/debian sid/main amd64 python3-reportlab all 4.1.0-1 [674 kB] Get:134 http://deb.debian.org/debian sid/main amd64 netbase all 6.4 [12.8 kB] Get:135 http://deb.debian.org/debian sid/main amd64 media-types all 10.1.0 [26.9 kB] Get:136 http://deb.debian.org/debian sid/main amd64 python3.11-dev amd64 3.11.8-1 [509 kB] Get:137 http://deb.debian.org/debian sid/main amd64 python3.11 amd64 3.11.8-1 [597 kB] Get:138 http://deb.debian.org/debian sid/main amd64 libexpat1-dev amd64 2.6.0-1 [154 kB] Get:139 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.6.0-1 [101 kB] Get:140 http://deb.debian.org/debian sid/main amd64 libpython3.11-dev amd64 3.11.8-1 [4576 kB] Get:141 http://deb.debian.org/debian sid/main amd64 libpython3.11 amd64 3.11.8-1 [1992 kB] Get:142 http://deb.debian.org/debian sid/main amd64 tzdata all 2024a-1 [255 kB] Get:143 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-3 [69.1 kB] Get:144 http://deb.debian.org/debian sid/main amd64 libreadline8 amd64 8.2-3 [167 kB] Get:145 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.45.1-1 [894 kB] Get:146 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.39.3-6 [29.7 kB] Get:147 http://deb.debian.org/debian sid/main amd64 libpython3.11-stdlib amd64 3.11.8-1 [1825 kB] Get:148 http://deb.debian.org/debian sid/main amd64 python3.11-minimal amd64 3.11.8-1 [2037 kB] Get:149 http://deb.debian.org/debian sid/main amd64 libpython3.11-minimal amd64 3.11.8-1 [817 kB] Get:150 http://deb.debian.org/debian sid/main amd64 python3-all-dev amd64 3.11.6-1 [1076 B] Get:151 http://deb.debian.org/debian sid/main amd64 python3-all amd64 3.11.6-1 [1060 B] Get:152 http://deb.debian.org/debian sid/main amd64 python3-pandas all 2.1.4+dfsg-5 [3015 kB] Get:153 http://deb.debian.org/debian sid/main amd64 libpython3-all-dev amd64 3.11.6-1 [1072 B] Get:154 http://deb.debian.org/debian sid/main amd64 libpython3-dev amd64 3.11.6-1 [9460 B] Get:155 http://deb.debian.org/debian sid/main amd64 python3-dev amd64 3.11.6-1 [26.1 kB] Get:156 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.11.6-1 [26.2 kB] Get:157 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.11.6-1 [26.2 kB] Get:158 http://deb.debian.org/debian sid/main amd64 python3-distutils all 3.11.5-1 [131 kB] Get:159 http://deb.debian.org/debian sid/main amd64 python3-lib2to3 all 3.11.5-1 [77.5 kB] Get:160 http://deb.debian.org/debian sid/main amd64 libjs-sphinxdoc all 7.2.6-4 [150 kB] Get:161 http://deb.debian.org/debian sid/main amd64 libpython3.12-minimal amd64 3.12.2-1 [807 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libpython3.12-stdlib amd64 3.12.2-1 [1929 kB] Get:163 http://deb.debian.org/debian sid/main amd64 libpython3.12 amd64 3.12.2-1 [2129 kB] Get:164 http://deb.debian.org/debian sid/main amd64 libpython3.12-dev amd64 3.12.2-1 [4945 kB] Get:165 http://deb.debian.org/debian sid/main amd64 python3.12-minimal amd64 3.12.2-1 [2186 kB] Get:166 http://deb.debian.org/debian sid/main amd64 python3.12 amd64 3.12.2-1 [653 kB] Get:167 http://deb.debian.org/debian sid/main amd64 python3.12-dev amd64 3.12.2-1 [506 kB] Get:168 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.8.2-3 [78.4 kB] Get:169 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 68.1.2-2 [241 kB] Get:170 http://deb.debian.org/debian sid/main amd64 libopenblas-pthread-dev amd64 0.3.26+ds-1 [4780 kB] Get:171 http://deb.debian.org/debian sid/main amd64 libopenblas0-pthread amd64 0.3.26+ds-1 [6807 kB] Get:172 http://deb.debian.org/debian sid/main amd64 libopenblas0 amd64 0.3.26+ds-1 [37.5 kB] Get:173 http://deb.debian.org/debian sid/main amd64 libopenblas-dev amd64 0.3.26+ds-1 [50.5 kB] Get:174 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:175 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:176 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:1.24.2-2 [6299 kB] Get:177 http://deb.debian.org/debian sid/main amd64 python3-tz all 2024.1-1 [30.8 kB] Get:178 http://deb.debian.org/debian sid/main amd64 python3-pandas-lib amd64 2.1.4+dfsg-5 [7883 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.11.6-1 [9224 B] Get:180 http://deb.debian.org/debian sid/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get:181 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get:182 http://deb.debian.org/debian sid/main amd64 libpng16-16 amd64 1.6.42-1 [277 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b1 [439 kB] Get:184 http://deb.debian.org/debian sid/main amd64 libimagequant0 amd64 2.18.0-1 [35.0 kB] Get:185 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-2+b2 [167 kB] Get:186 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get:187 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.0-2+b2 [190 kB] Get:188 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.13-3+b1 [71.4 kB] Get:189 http://deb.debian.org/debian sid/main amd64 libglib2.0-0 amd64 2.78.4-1 [1452 kB] Get:190 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:191 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 8.3.0-2 [2213 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libraqm0 amd64 0.10.1-1 [13.7 kB] Get:193 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.19-1 [41.4 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:195 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:196 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [108 kB] Get:197 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.3.2-0.4 [308 kB] Get:198 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-4 [322 kB] Get:199 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.3.2-0.4 [107 kB] Get:200 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.3.2-0.4 [120 kB] Get:201 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 10.2.0-1 [525 kB] Get:202 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:203 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:204 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-1 [317 kB] Get:205 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-1 [388 kB] Get:206 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:207 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:208 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.7-1 [802 kB] Get:209 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:210 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:211 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:212 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:213 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.0-1+b1 [531 kB] Get:214 http://deb.debian.org/debian sid/main amd64 python3-cairo amd64 1.25.1-2 [140 kB] Get:215 http://deb.debian.org/debian sid/main amd64 python3-freetype all 2.4.0-1 [80.3 kB] Get:216 http://deb.debian.org/debian sid/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get:217 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-extra all 2.37-8 [1792 kB] Get:218 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.0-2+b1 [19.9 kB] Get:219 http://deb.debian.org/debian sid/main amd64 libext2fs2 amd64 1.47.0-2+b1 [205 kB] Get:220 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.0-2+b1 [572 kB] Get:221 http://deb.debian.org/debian sid/main amd64 mount amd64 2.39.3-6 [143 kB] Get:222 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.2-9.1 [134 kB] Get:223 http://deb.debian.org/debian sid/main amd64 libacl1 amd64 2.3.2-1 [32.4 kB] Get:224 http://deb.debian.org/debian sid/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:225 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:226 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20240123-1 [136 kB] Get:227 http://deb.debian.org/debian sid/main amd64 cd-hit amd64 4.8.1-4 [522 kB] Get:228 http://deb.debian.org/debian sid/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-13 [10.3 MB] Get:229 http://deb.debian.org/debian sid/main amd64 g++ amd64 4:13.2.0-7 [1348 B] Get:230 http://deb.debian.org/debian sid/main amd64 gcc amd64 4:13.2.0-7 [5152 B] Get:231 http://deb.debian.org/debian sid/main amd64 cpp amd64 4:13.2.0-7 [1564 B] Get:232 http://deb.debian.org/debian sid/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7 [4724 B] Get:233 http://deb.debian.org/debian sid/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-13 [19.8 MB] Get:234 http://deb.debian.org/debian sid/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-13 [11.2 MB] Get:235 http://deb.debian.org/debian sid/main amd64 gcc-13 amd64 13.2.0-13 [475 kB] Get:236 http://deb.debian.org/debian sid/main amd64 g++-13 amd64 13.2.0-13 [14.3 kB] Get:237 http://deb.debian.org/debian sid/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7 [1440 B] Get:238 http://deb.debian.org/debian sid/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7 [1200 B] Get:239 http://deb.debian.org/debian sid/main amd64 cpp-13 amd64 13.2.0-13 [1276 B] Get:240 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.11.8-1 [125 kB] Get:241 http://deb.debian.org/debian sid/main amd64 libfontenc1 amd64 1:1.1.4-1+b2 [23.3 kB] Get:242 http://deb.debian.org/debian sid/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b1 [29.1 kB] Get:243 http://deb.debian.org/debian sid/main amd64 liblmdb0 amd64 0.9.31-1+b1 [44.8 kB] Get:244 http://deb.debian.org/debian sid/main amd64 libmbedcrypto7 amd64 2.28.7-1 [280 kB] Get:245 http://deb.debian.org/debian sid/main amd64 libmbedx509-1 amd64 2.28.7-1 [130 kB] Get:246 http://deb.debian.org/debian sid/main amd64 libmbedtls14 amd64 2.28.7-1 [165 kB] Get:247 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.0-2+b1 [24.8 kB] Get:248 http://deb.debian.org/debian sid/main amd64 xtl-dev all 0.7.5-3 [89.8 kB] Get:249 http://deb.debian.org/debian sid/main amd64 libxsimd-dev amd64 12.1.1-2 [124 kB] Get:250 http://deb.debian.org/debian sid/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:251 http://deb.debian.org/debian sid/main amd64 ncbi-blast+ amd64 2.12.0+ds-4 [12.5 MB] Get:252 http://deb.debian.org/debian sid/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get:253 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.11.4-4 [19.5 MB] Get:254 http://deb.debian.org/debian sid/main amd64 python3-packaging all 23.2-1 [44.8 kB] Get:255 http://deb.debian.org/debian sid/main amd64 vsearch amd64 2.27.0-1 [399 kB] Get:256 http://deb.debian.org/debian sid/main amd64 presto all 0.7.2-1 [239 kB] Get:257 http://deb.debian.org/debian sid/main amd64 python3-presto amd64 0.7.2-1 [79.6 kB] Get:258 http://deb.debian.org/debian sid/main amd64 python3-ply all 3.11-6 [63.7 kB] Get:259 http://deb.debian.org/debian sid/main amd64 python3-setuptools all 68.1.2-2 [468 kB] Get:260 http://deb.debian.org/debian sid/main amd64 python3-pythran amd64 0.15.0+ds-2 [443 kB] Get:261 http://deb.debian.org/debian sid/main amd64 xml-core all 0.19 [20.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 282 MB in 2s (164 MB/s) (Reading database ... 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Unpacking libperl5.38:amd64 (5.38.2-3) ... Preparing to unpack .../perl-base_5.38.2-3_amd64.deb ... Unpacking perl-base (5.38.2-3) over (5.36.0-7+deb12u1) ... Setting up perl-base (5.38.2-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40276 files and directories currently installed.) Preparing to unpack .../libdb5.3_5.3.28+dfsg2-4+b1_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28+dfsg2-4+b1) over (5.3.28+dfsg2-1) ... Setting up libdb5.3:amd64 (5.3.28+dfsg2-4+b1) ... (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 ... 40277 files and directories currently installed.) Preparing to unpack .../libgdbm6_1.23-5+b1_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-5+b1) over (1.23-3) ... Preparing to unpack .../libgdbm-compat4_1.23-5+b1_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-5+b1) over (1.23-3) ... Preparing to unpack .../archives/sed_4.9-2_amd64.deb ... Unpacking sed (4.9-2) over (4.9-1) ... Setting up sed (4.9-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40277 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.4-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.4-2) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.4-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40275 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.39.3-6_amd64.deb ... Unpacking util-linux-extra (2.39.3-6) over (2.38.1-5+b1) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty Setting up util-linux-extra (2.39.3-6) ... (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 ... 40280 files and directories currently installed.) Preparing to unpack .../util-linux_2.39.3-6_amd64.deb ... Unpacking util-linux (2.39.3-6) over (2.38.1-5+b1) ... Setting up util-linux (2.39.3-6) ... (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 ... 40282 files and directories currently installed.) Preparing to unpack .../libnettle8_3.9.1-2_amd64.deb ... Unpacking libnettle8:amd64 (3.9.1-2) over (3.8.1-2) ... Setting up libnettle8:amd64 (3.9.1-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40282 files and directories currently installed.) Preparing to unpack .../libunistring5_1.1-2_amd64.deb ... Unpacking libunistring5:amd64 (1.1-2) ... Setting up libunistring5:amd64 (1.1-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40288 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.7-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2) over (2.3.3-1+b1) ... Setting up libidn2-0:amd64 (2.3.7-2) ... (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 ... 40288 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b2) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b2) ... (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 ... 40289 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.8.3-1_amd64.deb ... Unpacking libgnutls30:amd64 (3.8.3-1) over (3.7.9-2+deb12u2) ... Setting up libgnutls30:amd64 (3.8.3-1) ... (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 ... 40288 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.271_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.271) over (0.270) ... Setting up libdebconfclient0:amd64 (0.271) ... (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 ... 40288 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.3_amd64.deb ... Unpacking base-passwd (3.6.3) over (3.6.1) ... Setting up base-passwd (3.6.3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40288 files and directories currently installed.) Preparing to unpack .../debconf_1.5.86_all.deb ... Unpacking debconf (1.5.86) over (1.5.82) ... Setting up debconf (1.5.86) ... Installing new version of config file /etc/debconf.conf ... (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 ... 40287 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.2-9.1+b1_amd64.deb ... Unpacking libpam0g:amd64 (1.5.2-9.1+b1) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.5.2-9.1+b1) ... (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 ... 40287 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.5-1_all.deb ... Unpacking libsemanage-common (3.5-1) over (3.4-1) ... Setting up libsemanage-common (3.5-1) ... (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 ... 40287 files and directories currently installed.) Preparing to unpack .../libsepol2_3.5-2_amd64.deb ... Unpacking libsepol2:amd64 (3.5-2) over (3.4-2.1) ... Setting up libsepol2:amd64 (3.5-2) ... (Reading database ... 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Setting up libgraphite2-3:amd64 (1.3.14-2) ... Setting up liblcms2-2:amd64 (2.14-2+b1) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libpixman-1-0:amd64 (0.42.2-1) ... Setting up libsharpyuv0:amd64 (1.3.2-0.4) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libglib2.0-0:amd64 (2.78.4-1) ... No schema files found: doing nothing. Setting up vsearch (2.27.0-1) ... Setting up fontconfig-config (2.15.0-1) ... Setting up libtirpc-common (1.3.4+ds-1) ... Setting up libbrotli1:amd64 (1.1.0-2+b3) ... Setting up libsqlite3-0:amd64 (3.45.1-1) ... Setting up libpython3.12-minimal:amd64 (3.12.2-1) ... Setting up binutils-common:amd64 (2.42-2) ... Installing new version of config file /etc/gprofng.rc ... Setting up libdeflate0:amd64 (1.19-1) ... Setting up linux-libc-dev (6.6.15-2) ... Setting up libctf-nobfd0:amd64 (2.42-2) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libgomp1:amd64 (14-20240201-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libsframe1:amd64 (2.42-2) ... Setting up libjansson4:amd64 (2.14-2+b2) ... Setting up libkrb5support0:amd64 (1.20.1-5+b1) ... Setting up gcc-12-base:amd64 (12.3.0-14) ... Setting up tzdata (2024a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Feb 19 22:01:18 UTC 2024. Universal Time is now: Mon Feb 19 22:01:18 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:amd64 (1:1.1.4-1+b2) ... Setting up libblas3:amd64 (3.12.0-3) ... Setting up gcc-13-base:amd64 (13.2.0-13) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2+b2) ... Setting up libmbedcrypto7:amd64 (2.28.7-1) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libmpfr6:amd64 (4.2.1-1) ... Setting up libfribidi0:amd64 (1.0.13-3+b1) ... Setting up perl-modules-5.38 (5.38.2-3) ... Setting up libquadmath0:amd64 (14-20240201-3) ... Setting up libimagequant0:amd64 (2.18.0-1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16:amd64 (1.6.42-1) ... Setting up libmpc3:amd64 (1.3.1-1+b2) ... Setting up libatomic1:amd64 (14-20240201-3) ... Setting up libss2:amd64 (1.47.0-2+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up xtl-dev (0.7.5-3) ... Setting up libncursesw6:amd64 (6.4+20240113-1) ... Setting up libk5crypto3:amd64 (1.20.1-5+b1) ... Setting up libjs-sphinxdoc (7.2.6-4) ... Setting up logsave (1.47.0-2+b1) ... Setting up libgfortran5:amd64 (14-20240201-3) ... Setting up libwebp7:amd64 (1.3.2-0.4) ... Setting up libubsan1:amd64 (14-20240201-3) ... Setting up fonts-dejavu-extra (2.37-8) ... Setting up mount (2.39.3-6) ... Setting up libhwasan0:amd64 (14-20240201-3) ... Setting up libcrypt-dev:amd64 (1:4.4.36-4) ... Setting up libtiff6:amd64 (4.5.1+git230720-4) ... Setting up xml-core (0.19) ... Setting up libasan8:amd64 (14-20240201-3) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b2) ... Setting up libx11-6:amd64 (2:1.8.7-1) ... Setting up netbase (6.4) ... Setting up mawk (1.3.4.20240123-1) ... Setting up libkrb5-3:amd64 (1.20.1-5+b1) ... Setting up libtsan2:amd64 (14-20240201-3) ... Setting up libbinutils:amd64 (2.42-2) ... Setting up libisl23:amd64 (0.26-3+b2) ... Setting up libc-dev-bin (2.37-15) ... Setting up libwebpmux3:amd64 (1.3.2-0.4) ... Setting up libbsd0:amd64 (0.11.8-1) ... Setting up readline-common (8.2-3) ... Setting up libcc1-0:amd64 (14-20240201-3) ... Setting up liblsan0:amd64 (14-20240201-3) ... Setting up libitm1:amd64 (14-20240201-3) ... Setting up libgdbm6:amd64 (1.23-5+b1) ... Setting up libctf0:amd64 (2.42-2) ... Setting up python3.12-minimal (3.12.2-1) ... Setting up liblapack3:amd64 (3.12.0-3) ... Setting up cpp-12 (12.3.0-14) ... Setting up libopenblas0-pthread:amd64 (0.3.26+ds-1) ... Setting up libmbedx509-1:amd64 (2.28.7-1) ... Setting up libmbedtls14:amd64 (2.28.7-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up cpp-13-x86-64-linux-gnu (13.2.0-13) ... Setting up libwebpdemux2:amd64 (1.3.2-0.4) ... Setting up libreadline8:amd64 (8.2-3) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up e2fsprogs (1.47.0-2+b1) ... Setting up libxsimd-dev:amd64 (12.1.1-2) ... Setting up libgprofng0:amd64 (2.42-2) ... Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b1) ... Setting up libgcc-12-dev:amd64 (12.3.0-14) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Setting up libgdbm-compat4:amd64 (1.23-5+b1) ... Setting up libgcc-13-dev:amd64 (13.2.0-13) ... Setting up libopenblas0:amd64 (0.3.26+ds-1) ... Setting up libharfbuzz0b:amd64 (8.3.0-2) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Setting up binutils-x86-64-linux-gnu (2.42-2) ... Setting up cpp-x86-64-linux-gnu (4:13.2.0-7) ... Setting up libopenblas-pthread-dev:amd64 (0.3.26+ds-1) ... Setting up libtirpc3:amd64 (1.3.4+ds-1) ... Setting up cpp-13 (13.2.0-13) ... Setting up gcc-13-x86-64-linux-gnu (13.2.0-13) ... Setting up libperl5.38:amd64 (5.38.2-3) ... Setting up binutils (2.42-2) ... Setting up libopenblas-dev:amd64 (0.3.26+ds-1) ... Setting up perl (5.38.2-3) ... Setting up libtirpc-dev:amd64 (1.3.4+ds-1) ... Setting up gcc-12 (12.3.0-14) ... Setting up libraqm0:amd64 (0.10.1-1) ... Setting up gcc-13 (13.2.0-13) ... Setting up cpp (4:13.2.0-7) ... Setting up libnsl2:amd64 (1.3.0-3) ... Setting up cd-hit (4.8.1-4) ... Setting up libpython3.12-stdlib:amd64 (3.12.2-1) ... Setting up gcc-x86-64-linux-gnu (4:13.2.0-7) ... Setting up libpython3.11-stdlib:amd64 (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up gcc (4:13.2.0-7) ... Setting up libnsl-dev:amd64 (1.3.0-3) ... Setting up libc6-dev:amd64 (2.37-15) ... Setting up libpython3.12:amd64 (3.12.2-1) ... Setting up libstdc++-13-dev:amd64 (13.2.0-13) ... Setting up libpython3-stdlib:amd64 (3.11.6-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libboost1.83-dev:amd64 (1.83.0-2+b2) ... Setting up libpython3.11:amd64 (3.11.8-1) ... Setting up g++-13-x86-64-linux-gnu (13.2.0-13) ... Setting up libstdc++-12-dev:amd64 (12.3.0-14) ... Setting up python3 (3.11.6-1) ... Setting up python3-freetype (2.4.0-1) ... Setting up python3-tz (2024.1-1) ... Setting up ncbi-blast+ (2.12.0+ds-4) ... Setting up python3-pil:amd64 (10.2.0-1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (23.2-1) ... Setting up libexpat1-dev:amd64 (2.6.0-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3+b1) ... Setting up g++-x86-64-linux-gnu (4:13.2.0-7) ... Setting up python3-dateutil (2.8.2-3) ... Setting up libboost-dev:amd64 (1.83.0.2) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up g++-12 (12.3.0-14) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... python3.12: can't get files for byte-compilation Setting up g++-13 (13.2.0-13) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-ply (3.11-6) ... Setting up python3-all (3.11.6-1) ... Setting up libpython3.12-dev:amd64 (3.12.2-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up libpython3.11-dev:amd64 (3.11.8-1) ... Setting up python3.12-dev (3.12.2-1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up g++ (4:13.2.0-7) ... Setting up python3-scipy (1.11.4-4) ... Setting up libpython3-dev:amd64 (3.11.6-1) ... Setting up python3.11-dev (3.11.8-1) ... Setting up python3-pandas-lib:amd64 (2.1.4+dfsg-5) ... Setting up python3-pandas (2.1.4+dfsg-5) ... Setting up libpython3-all-dev:amd64 (3.11.6-1) ... Setting up python3-dev (3.11.6-1) ... Setting up python3-all-dev (3.11.6-1) ... Setting up python3-pythran (0.15.0+ds-2) ... Processing triggers for sgml-base (1.31) ... Processing triggers for debianutils (5.16) ... Setting up libfontconfig1:amd64 (2.15.0-1) ... Processing triggers for mailcap (3.70+nmu1) ... Processing triggers for libc-bin (2.37-15) ... Setting up libcairo2:amd64 (1.18.0-1+b1) ... Setting up python3-cairo (1.25.1-2) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-reportlab (4.1.0-1) ... Setting up python3-biopython (1.81+dfsg-3) ... Setting up python3-presto (0.7.2-1) ... /usr/lib/python3/dist-packages/presto/Annotation.py:293: SyntaxWarning: invalid escape sequence '\s' sub_regex = '[%s\s]+' % re.escape(''.join(delimiter)) /usr/lib/python3/dist-packages/presto/Annotation.py:368: SyntaxWarning: invalid escape sequence '\s' sub_regex = '[%s\s]+' % re.escape(''.join(delimiter[1:])) /usr/lib/python3/dist-packages/presto/Annotation.py:491: SyntaxWarning: invalid escape sequence '\s' header['SPECIES'] = re.sub('\s', '_', fields[2]) /usr/lib/python3/dist-packages/presto/Annotation.py:493: SyntaxWarning: invalid escape sequence '\(' header['FUNCTIONALITY'] = re.sub('[\(\)\[\]]', '', fields[3]) /usr/lib/python3/dist-packages/presto/Annotation.py:494: SyntaxWarning: invalid escape sequence '\s' header['PARTIAL'] = 'FALSE' if re.sub('\s', '', fields[13]) == '' else 'TRUE' /usr/lib/python3/dist-packages/presto/Applications.py:61: SyntaxWarning: invalid escape sequence '\.' version = re.sub('\.linux.*$','',version) /usr/lib/python3/dist-packages/presto/Applications.py:288: SyntaxWarning: invalid escape sequence '\>' id_regex = re.compile('([0-9]+\t[0-9]+nt, \>)(.+)(\.\.\.)') /usr/lib/python3/dist-packages/presto/IO.py:34: SyntaxWarning: invalid escape sequence '\s' if replace_special: parse_id = lambda x: re.sub('[\s,=|]+', '_', x) Setting up presto (0.7.2-1) ... Processing triggers for libc-bin (2.37-15) ... 3m13.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-yf', 'dist-upgrade'] 3m13.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 3m15.3s DUMP: 8db64e2ed0fc7c5853f91cf6beb001d3 - 3m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 3m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'show', '--no-all-versions', 'presto'] 3m15.6s DUMP: Package: presto Version: 0.7.2-1 Installed-Size: 898 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any, python3-presto Description-en: toolkit for processing B and T cell sequences pRESTO is a toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires. . Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of lymphocyte repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. The REpertoire Sequencing TOolkit (pRESTO) is composed of a suite of utilities to handle all stages of sequence processing prior to germline segment assignment. pRESTO is designed to handle either single reads or paired-end reads. It includes features for quality control, primer masking, annotation of reads with sequence embedded barcodes, generation of unique molecular identifier (UMI) consensus sequences, assembly of paired-end reads and identification of duplicate sequences. Numerous options for sequence sorting, sampling and conversion operations are also included. Description-md5: 1df336b8ef4efca6890d5fff54328f94 Homepage: https://presto.readthedocs.io Section: python Priority: optional Filename: pool/main/p/presto/presto_0.7.2-1_all.deb Size: 239480 MD5sum: a5bceb56122d912e414313e07b56bc69 SHA256: 153e501919d7879843ec28b9e052801ab79c49e0220e3182d6e81cb823712e7d 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'show', '--no-all-versions', 'presto'] 3m15.6s INFO: apt-cache knows about the following packages: presto 3m15.6s INFO: Running scripts pre_install 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 3m15.7s 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: 3m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 3m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 3m15.7s DUMP: presto: Installed: 0.7.2-1 Candidate: 0.7.2-1 Version table: *** 0.7.2-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 3m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 3m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto'] 3m16.5s DUMP: Reading package lists... Building dependency tree... Reading state information... presto is already the newest version (0.7.2-1). The following packages were automatically installed and are no longer required: libboost-dev libboost1.83-dev libopenblas-dev libopenblas-pthread-dev libopenblas0 libperl5.36 libpython3-all-dev libpython3.12 libpython3.12-dev libxsimd-dev perl-modules-5.36 python3-all python3-all-dev python3-beniget python3-gast python3-ply python3-pythran python3.12-dev xtl-dev Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto'] 3m16.5s INFO: Running scripts post_install 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 3m16.5s INFO: Running scripts post_distupgrade 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_base_cleanup'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_base_cleanup'] 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_exceptions'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_exceptions'] 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_squeeze-backports'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_squeeze-backports'] 3m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_zz_backports'] 3m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_distupgrade_zz_backports'] 3m16.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m18.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m18.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m21.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m21.0s INFO: Running scripts pre_install 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_database-server'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_exceptions'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_extras'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 3m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture'] 3m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_install_foreign_architecture_i386'] 3m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 3m21.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 3m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy'] 3m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 3m21.2s DUMP: presto: Installed: 0.7.2-1 Candidate: 0.7.2-1 Version table: *** 0.7.2-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 3m21.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-cache', 'policy', 'presto'] 3m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto=0.7.2-1'] 3m21.6s DUMP: Reading package lists... Building dependency tree... Reading state information... presto is already the newest version (0.7.2-1). The following packages were automatically installed and are no longer required: libboost-dev libboost1.83-dev libopenblas-dev libopenblas-pthread-dev libopenblas0 libperl5.36 libpython3-all-dev libpython3.12 libpython3.12-dev libxsimd-dev perl-modules-5.36 python3-all python3-all-dev python3-beniget python3-gast python3-ply python3-pythran python3.12-dev xtl-dev Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 3m21.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', '-y', 'install', 'presto=0.7.2-1'] 3m21.6s INFO: Running scripts post_install 3m21.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 3m21.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_install_exceptions'] 3m21.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m24.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 3m24.1s INFO: /bin converted to /usr/bin by /usr merge 3m24.1s INFO: /lib converted to /usr/lib by /usr merge 3m24.1s INFO: /lib/init converted to /usr/lib/init by /usr merge 3m24.1s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 3m24.1s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 3m24.1s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 3m24.1s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 3m24.1s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 3m24.1s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 3m24.1s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 3m24.1s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 3m24.1s INFO: /lib64 converted to /usr/lib64 by /usr merge 3m24.1s INFO: /sbin converted to /usr/sbin by /usr merge 3m27.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', '-ac', '--ignore-obsolete'] 3m32.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', '-ac', '--ignore-obsolete'] 3m32.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 3m32.6s DUMP: 0.15.6 3m32.6s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 3m32.6s INFO: Running adequate version 0.15.6 now. 3m32.6s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'presto'] 3m32.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'presto'] 3m32.8s INFO: Running scripts pre_remove 3m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 3m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 3m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 3m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 3m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m38.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m38.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_exceptions'] 3m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/pre_remove_exceptions'] 3m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m39.1s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.7.11 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.3 install ok installed bash bash 5.2.21-2 install ok installed binutils binutils 2.42-2 install ok installed binutils-common:amd64 binutils-common 2.42-2 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.42-2 install ok installed bsdutils bsdutils 1:2.39.3-6 install ok installed cd-hit cd-hit 4.8.1-4 install ok installed coreutils coreutils 9.4-3+b1 install ok installed cpp cpp 4:13.2.0-7 install ok installed cpp-12 cpp-12 12.3.0-14 install ok installed cpp-13 cpp-13 13.2.0-13 install ok installed cpp-13-x86-64-linux-gnu cpp-13-x86-64-linux-gnu 13.2.0-13 install ok installed cpp-x86-64-linux-gnu cpp-x86-64-linux-gnu 4:13.2.0-7 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.86 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.16 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.4 install ok installed e2fsprogs e2fsprogs 1.47.0-2+b1 install ok installed findutils findutils 4.9.0-5 install ok installed fontconfig-config fontconfig-config 2.15.0-1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-extra fonts-dejavu-extra 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-7 install ok installed g++ g++ 4:13.2.0-7 install ok installed g++-12 g++-12 12.3.0-14 install ok installed g++-13 g++-13 13.2.0-13 install ok installed g++-13-x86-64-linux-gnu g++-13-x86-64-linux-gnu 13.2.0-13 install ok installed g++-x86-64-linux-gnu g++-x86-64-linux-gnu 4:13.2.0-7 install ok installed gcc gcc 4:13.2.0-7 install ok installed gcc-12 gcc-12 12.3.0-14 install ok installed gcc-12-base:amd64 gcc-12-base 12.3.0-14 install ok installed gcc-13 gcc-13 13.2.0-13 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-13 install ok installed gcc-13-x86-64-linux-gnu gcc-13-x86-64-linux-gnu 13.2.0-13 install ok installed gcc-14-base:amd64 gcc-14-base 14-20240201-3 install ok installed gcc-x86-64-linux-gnu gcc-x86-64-linux-gnu 4:13.2.0-7 install ok installed gpgv gpgv 2.2.40-1.1+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.7.11 install ok installed libasan8:amd64 libasan8 14-20240201-3 install ok installed libatomic1:amd64 libatomic1 14-20240201-3 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:3.1.2-2 install ok installed libaudit1:amd64 libaudit1 1:3.1.2-2 install ok installed libbinutils:amd64 libbinutils 2.42-2 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.39.3-6 install ok installed libboost-dev:amd64 libboost-dev 1.83.0.2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-2+b2 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b3 install ok installed libbsd0:amd64 libbsd0 0.11.8-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b2 install ok installed libc-bin libc-bin 2.37-15 install ok installed libc-dev-bin libc-dev-bin 2.37-15 install ok installed libc6:amd64 libc6 2.37-15 install ok installed libc6-dev:amd64 libc6-dev 2.37-15 install ok installed libcairo2:amd64 libcairo2 1.18.0-1+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.4-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcc1-0:amd64 libcc1-0 14-20240201-3 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2+b1 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-4 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-4 install ok installed libctf-nobfd0:amd64 libctf-nobfd0 2.42-2 install ok installed libctf0:amd64 libctf0 2.42-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-4+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.271 install ok installed libdeflate0:amd64 libdeflate0 1.19-1 install ok installed libexpat1:amd64 libexpat1 2.6.0-1 install ok installed libexpat1-dev:amd64 libexpat1-dev 2.6.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2+b1 install ok installed libffi8:amd64 libffi8 3.4.4-2 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.4-1+b2 install ok installed libfreetype6:amd64 libfreetype6 2.13.2+dfsg-1+b1 install ok installed libfribidi0:amd64 libfribidi0 1.0.13-3+b1 install ok installed libgcc-12-dev:amd64 libgcc-12-dev 12.3.0-14 install ok installed libgcc-13-dev:amd64 libgcc-13-dev 13.2.0-13 install ok installed libgcc-s1:amd64 libgcc-s1 14-20240201-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.3-2 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-5+b1 install ok installed libgdbm6:amd64 libgdbm6 1.23-5+b1 install ok installed libgfortran5:amd64 libgfortran5 14-20240201-3 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.78.4-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30:amd64 libgnutls30 3.8.3-1 install ok installed libgomp1:amd64 libgomp1 14-20240201-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-3 install ok installed libgprofng0:amd64 libgprofng0 2.42-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-5+b1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 8.3.0-2 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2 install ok installed libhwasan0:amd64 libhwasan0 14-20240201-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libimagequant0:amd64 libimagequant0 2.18.0-1 install ok installed libisl23:amd64 libisl23 0.26-3+b2 install ok installed libitm1:amd64 libitm1 14-20240201-3 install ok installed libjansson4:amd64 libjansson4 2.14-2+b2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-2+b2 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 7.2.6-4 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-5+b1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-5+b1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-5+b1 install ok installed liblapack3:amd64 liblapack3 3.12.0-3 install ok installed liblbfgsb0:amd64 liblbfgsb0 3.0+dfsg.4-1+b1 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblmdb0:amd64 liblmdb0 0.9.31-1+b1 install ok installed liblsan0:amd64 liblsan0 14-20240201-3 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1+b2 install ok installed liblzma5:amd64 liblzma5 5.4.5-0.3 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.7-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.7-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.7-1 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.39.3-6 install ok installed libmpc3:amd64 libmpc3 1.3.1-1+b2 install ok installed libmpfr6:amd64 libmpfr6 4.2.1-1 install ok installed libncursesw6:amd64 libncursesw6 6.4+20240113-1 install ok installed libnettle8:amd64 libnettle8 3.9.1-2 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-3 install ok installed libnsl2:amd64 libnsl2 1.3.0-3 install ok installed libopenblas-dev:amd64 libopenblas-dev 0.3.26+ds-1 install ok installed libopenblas-pthread-dev:amd64 libopenblas-pthread-dev 0.3.26+ds-1 install ok installed libopenblas0:amd64 libopenblas0 0.3.26+ds-1 install ok installed libopenblas0-pthread:amd64 libopenblas0-pthread 0.3.26+ds-1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.0-2+b2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.3-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-9.1+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-9.1+b1 install ok installed libpam-runtime libpam-runtime 1.5.2-9.1 install ok installed libpam0g:amd64 libpam0g 1.5.2-9.1+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libperl5.38:amd64 libperl5.38 5.38.2-3 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.42-1 install ok installed libpython3-all-dev:amd64 libpython3-all-dev 3.11.6-1 install ok installed libpython3-dev:amd64 libpython3-dev 3.11.6-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.6-1 install ok installed libpython3.11:amd64 libpython3.11 3.11.8-1 install ok installed libpython3.11-dev:amd64 libpython3.11-dev 3.11.8-1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.8-1 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.8-1 install ok installed libpython3.12:amd64 libpython3.12 3.12.2-1 install ok installed libpython3.12-dev:amd64 libpython3.12-dev 3.12.2-1 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.2-1 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.2-1 install ok installed libquadmath0:amd64 libquadmath0 14-20240201-3 install ok installed libraqm0:amd64 libraqm0 0.10.1-1 install ok installed libreadline8:amd64 libreadline8 8.2-3 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1 install ok installed libselinux1:amd64 libselinux1 3.5-2 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b2 install ok installed libsepol2:amd64 libsepol2 3.5-2 install ok installed libsframe1:amd64 libsframe1 2.42-2 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.3.2-0.4 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.3-6 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.45.1-1 install ok installed libss2:amd64 libss2 1.47.0-2+b1 install ok installed libssl3:amd64 libssl3 3.1.5-1 install ok installed libstdc++-12-dev:amd64 libstdc++-12-dev 12.3.0-14 install ok installed libstdc++-13-dev:amd64 libstdc++-13-dev 13.2.0-13 install ok installed libstdc++6:amd64 libstdc++6 14-20240201-3 install ok installed libsystemd0:amd64 libsystemd0 255.3-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-4 install ok installed libtinfo6:amd64 libtinfo6 6.4+20240113-1 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1 install ok installed libtirpc-dev:amd64 libtirpc-dev 1.3.4+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.4+ds-1 install ok installed libtsan2:amd64 libtsan2 14-20240201-3 install ok installed libubsan1:amd64 libubsan1 14-20240201-3 install ok installed libudev1:amd64 libudev1 255.3-2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libuuid1:amd64 libuuid1 2.39.3-6 install ok installed libwebp7:amd64 libwebp7 1.3.2-0.4 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.3.2-0.4 install ok installed libwebpmux3:amd64 libwebpmux3 1.3.2-0.4 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxsimd-dev:amd64 libxsimd-dev 12.1.1-2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-2 install ok installed linux-libc-dev linux-libc-dev 6.6.15-2 install ok installed login login 1:4.13+dfsg1-4 install ok installed logsave logsave 1.47.0-2+b1 install ok installed mailcap mailcap 3.70+nmu1 install ok installed mawk mawk 1.3.4.20240123-1 install ok installed media-types media-types 10.1.0 install ok installed mime-support mime-support 3.66 install ok installed mount mount 2.39.3-6 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-4 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-10 install ok installed ncurses-base ncurses-base 6.4+20240113-1 install ok installed ncurses-bin ncurses-bin 6.4+20240113-1 install ok installed netbase netbase 6.4 install ok installed passwd passwd 1:4.13+dfsg1-4 install ok installed perl perl 5.38.2-3 install ok installed perl-base perl-base 5.38.2-3 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed perl-modules-5.38 perl-modules-5.38 5.38.2-3 install ok installed presto presto 0.7.2-1 install ok installed python3 python3 3.11.6-1 install ok installed python3-all python3-all 3.11.6-1 install ok installed python3-all-dev python3-all-dev 3.11.6-1 install ok installed python3-beniget python3-beniget 0.4.1-3 install ok installed python3-biopython python3-biopython 1.81+dfsg-3 install ok installed python3-cairo python3-cairo 1.25.1-2 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-1 install ok installed python3-dateutil python3-dateutil 2.8.2-3 install ok installed python3-decorator python3-decorator 5.1.1-5 install ok installed python3-dev python3-dev 3.11.6-1 install ok installed python3-distutils python3-distutils 3.11.5-1 install ok installed python3-freetype python3-freetype 2.4.0-1 install ok installed python3-gast python3-gast 0.5.2-2 install ok installed python3-lib2to3 python3-lib2to3 3.11.5-1 install ok installed python3-minimal python3-minimal 3.11.6-1 install ok installed python3-numpy python3-numpy 1:1.24.2-2 install ok installed python3-packaging python3-packaging 23.2-1 install ok installed python3-pandas python3-pandas 2.1.4+dfsg-5 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.1.4+dfsg-5 install ok installed python3-pil:amd64 python3-pil 10.2.0-1 install ok installed python3-pkg-resources python3-pkg-resources 68.1.2-2 install ok installed python3-ply python3-ply 3.11-6 install ok installed python3-presto python3-presto 0.7.2-1 install ok installed python3-pythran python3-pythran 0.15.0+ds-2 install ok installed python3-reportlab python3-reportlab 4.1.0-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-3 install ok installed python3-scipy python3-scipy 1.11.4-4 install ok installed python3-setuptools python3-setuptools 68.1.2-2 install ok installed python3-six python3-six 1.16.0-4 install ok installed python3-tz python3-tz 2024.1-1 install ok installed python3.11 python3.11 3.11.8-1 install ok installed python3.11-dev python3.11-dev 3.11.8-1 install ok installed python3.11-minimal python3.11-minimal 3.11.8-1 install ok installed python3.12 python3.12 3.12.2-1 install ok installed python3.12-dev python3.12-dev 3.12.2-1 install ok installed python3.12-minimal python3.12-minimal 3.12.2-1 install ok installed readline-common readline-common 8.2-3 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed sgml-base sgml-base 1.31 install ok installed sysvinit-utils sysvinit-utils 3.08-6 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.39.3-6 install ok installed util-linux-extra util-linux-extra 2.39.3-6 install ok installed vsearch vsearch 2.27.0-1 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+23 install ok installed xfonts-encodings xfonts-encodings 1:1.0.4-2.2 install ok installed xfonts-utils xfonts-utils 1:7.7+6 install ok installed xml-core xml-core 0.19 install ok installed xtl-dev xtl-dev 0.7.5-3 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg-3+b1 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.3.dfsg-3+b1 3m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cd-hit', 'cpp', 'cpp-12', 'cpp-13', 'cpp-13-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-urw-base35', 'g++-', 'g++-12', 'g++-13', 'g++-13-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-12', 'gcc-13', 'gcc-13-base:amd64', 'gcc-13-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'libasan8:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-13-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libimagequant0:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12:amd64', 'libpython3.12-dev:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'libsframe1:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-13-dev:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtsan2:amd64', 'libubsan1: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', 'libxsimd-dev:amd64', 'linux-libc-dev', 'mailcap', 'media-types', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'python3', 'python3-all', 'python3-all-dev', 'python3-beniget', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-freetype', 'python3-gast', 'python3-lib2to3', 'python3-minimal', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-ply', 'python3-presto', 'python3-pythran', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-tz', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-dev', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'sgml-base', 'vsearch', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'xtl-dev', 'zlib1g-dev:amd64', 'presto'] 4m30.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: binutils binutils-common binutils-x86-64-linux-gnu cd-hit cpp cpp-12 cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-urw-base35 g++ g++-12 g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-12 gcc-13 gcc-13-base gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libatomic1 libbinutils libblas3 libboost-dev libboost1.83-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libdeflate0 libexpat1 libexpat1-dev libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-13-dev libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgomp1 libgprofng0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhwasan0 libimagequant0 libisl23 libitm1 libjansson4 libjbig0 libjpeg62-turbo libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblmdb0 liblsan0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmpc3 libmpfr6 libncursesw6 libnsl-dev libnsl2 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libperl5.36 libperl5.38 libpixman-1-0 libpng16-16 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.12 libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libquadmath0 libraqm0 libreadline8 libsframe1 libsharpyuv0 libsqlite3-0 libstdc++-12-dev libstdc++-13-dev libtiff6 libtirpc-common libtirpc-dev libtirpc3 libtsan2 libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 libxsimd-dev linux-libc-dev mailcap media-types mime-support ncbi-blast+ ncbi-data netbase perl perl-modules-5.36 perl-modules-5.38 presto python3 python3-all python3-all-dev python3-beniget python3-biopython python3-cairo python3-chardet python3-dateutil python3-decorator python3-dev python3-distutils python3-freetype python3-gast python3-lib2to3 python3-minimal python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-ply python3-presto python3-pythran python3-reportlab python3-rlpycairo python3-scipy python3-setuptools python3-six python3-tz python3.11 python3.11-dev python3.11-minimal python3.12 python3.12-dev python3.12-minimal readline-common rpcsvc-proto sgml-base vsearch w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core xtl-dev zlib1g-dev 0 upgraded, 0 newly installed, 191 to remove and 0 not upgraded. After this operation, 1343 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 ... 44793 files and directories currently installed.) Removing python3-pythran (0.15.0+ds-2) ... Removing g++-12 (12.3.0-14) ... Removing gcc-12 (12.3.0-14) ... Removing g++ (4:13.2.0-7) ... Removing g++-x86-64-linux-gnu (4:13.2.0-7) ... Removing gcc (4:13.2.0-7) ... Removing gcc-x86-64-linux-gnu (4:13.2.0-7) ... Removing g++-13 (13.2.0-13) ... Removing g++-13-x86-64-linux-gnu (13.2.0-13) ... Removing presto (0.7.2-1) ... Removing python3-presto (0.7.2-1) ... Removing cd-hit (4.8.1-4) ... Removing cpp (4:13.2.0-7) ... Removing cpp-12 (12.3.0-14) ... Removing cpp-13 (13.2.0-13) ... Removing cpp-x86-64-linux-gnu (4:13.2.0-7) ... Removing python3-biopython (1.81+dfsg-3) ... Removing python3-reportlab (4.1.0-1) ... Removing python3-rlpycairo (0.3.0-3) ... Removing python3-cairo (1.25.1-2) ... Removing libcairo2:amd64 (1.18.0-1+b1) ... Removing libfontconfig1:amd64 (2.15.0-1) ... Removing fontconfig-config (2.15.0-1) ... Removing fonts-dejavu-extra (2.37-8) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing fonts-urw-base35 (20200910-7) ... Removing libboost-dev:amd64 (1.83.0.2) ... Removing libboost1.83-dev:amd64 (1.83.0-2+b2) ... Removing libstdc++-13-dev:amd64 (13.2.0-13) ... Removing libstdc++-12-dev:amd64 (12.3.0-14) ... Removing libgcc-12-dev:amd64 (12.3.0-14) ... Removing python3-scipy (1.11.4-4) ... Removing python3-pandas (2.1.4+dfsg-5) ... Removing python3-pandas-lib:amd64 (2.1.4+dfsg-5) ... Removing python3-numpy (1:1.24.2-2) ... Removing liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing xfonts-utils (1:7.7+6) ... Removing python3-pil:amd64 (10.2.0-1) ... Removing libraqm0:amd64 (0.10.1-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing python3-all-dev (3.11.6-1) ... Removing python3.12-dev (3.12.2-1) ... Removing libpython3-all-dev:amd64 (3.11.6-1) ... Removing libpython3.12-dev:amd64 (3.12.2-1) ... Removing python3-dev (3.11.6-1) ... Removing python3.11-dev (3.11.8-1) ... Removing libtiff6:amd64 (4.5.1+git230720-4) ... Removing libdeflate0:amd64 (1.19-1) ... Removing python3-all (3.11.6-1) ... Removing python3.12 (3.12.2-1) ... Removing python3.12-minimal (3.12.2-1) ... Removing libpython3.12:amd64 (3.12.2-1) ... Removing libfontenc1:amd64 (1:1.1.4-1+b2) ... Removing libfribidi0:amd64 (1.0.13-3+b1) ... Removing libpython3.12-stdlib:amd64 (3.12.2-1) ... Removing ncbi-blast+ (2.12.0+ds-4) ... Removing python3-setuptools (68.1.2-2) ... Removing python3-distutils (3.11.5-1) ... Removing mime-support (3.66) ... Removing mailcap (3.70+nmu1) ... Removing perl (5.38.2-3) ... Removing libperl5.38:amd64 (5.38.2-3) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4:amd64 (1.23-5+b1) ... Removing libgdbm6:amd64 (1.23-5+b1) ... Removing libopenblas-dev:amd64 (0.3.26+ds-1) ... Removing libopenblas-pthread-dev:amd64 (0.3.26+ds-1) ... Removing libopenblas0:amd64 (0.3.26+ds-1) ... Removing libopenblas0-pthread:amd64 (0.3.26+ds-1) ... Removing libgfortran5:amd64 (14-20240201-3) ... Removing libharfbuzz0b:amd64 (8.3.0-2) ... Removing libglib2.0-0:amd64 (2.78.4-1) ... Removing libimagequant0:amd64 (2.18.0-1) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-2+b2) ... Removing libjs-sphinxdoc (7.2.6-4) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Removing liblcms2-2:amd64 (2.14-2+b1) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing liblmdb0:amd64 (0.9.31-1+b1) ... Removing libmbedtls14:amd64 (2.28.7-1) ... Removing libmbedx509-1:amd64 (2.28.7-1) ... Removing libmbedcrypto7:amd64 (2.28.7-1) ... Removing libopenjp2-7:amd64 (2.5.0-2+b2) ... Removing libpixman-1-0:amd64 (0.42.2-1) ... Removing libpython3-dev:amd64 (3.11.6-1) ... Removing libpython3.12-minimal:amd64 (3.12.2-1) ... Removing libwebpmux3:amd64 (1.3.2-0.4) ... Removing libwebpdemux2:amd64 (1.3.2-0.4) ... Removing libwebp7:amd64 (1.3.2-0.4) ... Removing libsharpyuv0:amd64 (1.3.2-0.4) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libxsimd-dev:amd64 (12.1.1-2) ... Removing ncbi-data (6.1.20170106+dfsg1-10) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Removing perl-modules-5.38 (5.38.2-3) ... Removing python3-beniget (0.4.1-3) ... Removing python3-chardet (5.2.0+dfsg-1) ... Removing python3-dateutil (2.8.2-3) ... Removing python3-decorator (5.1.1-5) ... Removing python3-freetype (2.4.0-1) ... Removing python3-gast (0.5.2-2) ... Removing python3-lib2to3 (3.11.5-1) ... Removing python3-packaging (23.2-1) ... Removing python3-pkg-resources (68.1.2-2) ... Removing python3-ply (3.11-6) ... Removing python3-six (1.16.0-4) ... Removing python3-tz (2024.1-1) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.19) ... Removing sgml-base (1.31) ... Removing vsearch (2.27.0-1) ... Removing xfonts-encodings (1:1.0.4-2.2) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xtl-dev (0.7.5-3) ... Removing gcc-13 (13.2.0-13) ... Removing binutils (2.42-2) ... Removing gcc-13-x86-64-linux-gnu (13.2.0-13) ... Removing binutils-x86-64-linux-gnu (2.42-2) ... Removing libgprofng0:amd64 (2.42-2) ... Removing libctf0:amd64 (2.42-2) ... Removing libbinutils:amd64 (2.42-2) ... Removing binutils-common:amd64 (2.42-2) ... Removing cpp-13-x86-64-linux-gnu (13.2.0-13) ... Removing libgcc-13-dev:amd64 (13.2.0-13) ... Removing gcc-13-base:amd64 (13.2.0-13) ... Removing libasan8:amd64 (14-20240201-3) ... Removing libatomic1:amd64 (14-20240201-3) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1+b1) ... Removing libbrotli1:amd64 (1.1.0-2+b3) ... Removing libx11-6:amd64 (2:1.8.7-1) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.8-1) ... Removing libpython3.11-dev:amd64 (3.11.8-1) ... Removing zlib1g-dev:amd64 (1:1.3.dfsg-3+b1) ... Removing libexpat1-dev:amd64 (2.6.0-1) ... Removing libc6-dev:amd64 (2.37-15) ... Removing libc-dev-bin (2.37-15) ... Removing libcc1-0:amd64 (14-20240201-3) ... Removing libcrypt-dev:amd64 (1:4.4.36-4) ... Removing libctf-nobfd0:amd64 (2.42-2) ... Removing python3 (3.11.6-1) ... Removing python3.11 (3.11.8-1) ... Removing libgomp1:amd64 (14-20240201-3) ... Removing libpython3.11:amd64 (3.11.8-1) ... Removing libpython3-stdlib:amd64 (3.11.6-1) ... Removing libpython3.11-stdlib:amd64 (3.11.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl-dev:amd64 (1.3.0-3) ... Removing libtirpc-dev:amd64 (1.3.4+ds-1) ... Removing libhwasan0:amd64 (14-20240201-3) ... Removing libisl23:amd64 (0.26-3+b2) ... Removing libitm1:amd64 (14-20240201-3) ... Removing libjansson4:amd64 (2.14-2+b2) ... Removing liblsan0:amd64 (14-20240201-3) ... Removing libmpc3:amd64 (1.3.1-1+b2) ... Removing libmpfr6:amd64 (4.2.1-1) ... Removing libncursesw6:amd64 (6.4+20240113-1) ... Removing libnsl2:amd64 (1.3.0-3) ... Removing libpng16-16:amd64 (1.6.42-1) ... Removing python3-minimal (3.11.6-1) ... Removing python3.11-minimal (3.11.8-1) ... Removing libpython3.11-minimal:amd64 (3.11.8-1) ... find: '/usr/lib/python3': No such file or directory Removing libquadmath0:amd64 (14-20240201-3) ... Removing libreadline8:amd64 (8.2-3) ... Removing libsframe1:amd64 (2.42-2) ... Removing libsqlite3-0:amd64 (3.45.1-1) ... Removing libtsan2:amd64 (14-20240201-3) ... Removing libubsan1:amd64 (14-20240201-3) ... Removing libx11-data (2:1.8.7-1) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing linux-libc-dev (6.6.15-2) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing readline-common (8.2-3) ... Removing rpcsvc-proto (1.4.3-1) ... Removing libexpat1:amd64 (2.6.0-1) ... Removing libtirpc3:amd64 (1.3.4+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Removing libkrb5-3:amd64 (1.20.1-5+b1) ... Removing libk5crypto3:amd64 (1.20.1-5+b1) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.20.1-5+b1) ... Removing libtirpc-common (1.3.4+ds-1) ... Processing triggers for libc-bin (2.37-15) ... 4m30.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cd-hit', 'cpp', 'cpp-12', 'cpp-13', 'cpp-13-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-urw-base35', 'g++-', 'g++-12', 'g++-13', 'g++-13-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-12', 'gcc-13', 'gcc-13-base:amd64', 'gcc-13-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'libasan8:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-13-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libimagequant0:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12:amd64', 'libpython3.12-dev:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'libsframe1:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-13-dev:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtsan2:amd64', 'libubsan1: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', 'libxsimd-dev:amd64', 'linux-libc-dev', 'mailcap', 'media-types', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'python3', 'python3-all', 'python3-all-dev', 'python3-beniget', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-freetype', 'python3-gast', 'python3-lib2to3', 'python3-minimal', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-ply', 'python3-presto', 'python3-pythran', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-tz', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-dev', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'sgml-base', 'vsearch', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'xtl-dev', 'zlib1g-dev:amd64', 'presto'] 4m30.7s INFO: Running scripts post_remove 4m30.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_remove_exceptions'] 4m30.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_remove_exceptions'] 4m30.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cd-hit', 'cpp', 'cpp-12', 'cpp-13', 'cpp-13-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-urw-base35', 'g++', 'g++-12', 'g++-13', 'g++-13-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-12', 'gcc-13', 'gcc-13-base:amd64', 'gcc-13-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'libasan8:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-13-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libimagequant0:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12:amd64', 'libpython3.12-dev:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'libsframe1:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-13-dev:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtsan2:amd64', 'libubsan1: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', 'libxsimd-dev:amd64', 'linux-libc-dev', 'mailcap', 'media-types', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'python3', 'python3-all', 'python3-all-dev', 'python3-beniget', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-freetype', 'python3-gast', 'python3-lib2to3', 'python3-minimal', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-ply', 'python3-presto', 'python3-pythran', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-tz', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-dev', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'sgml-base', 'vsearch', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'xtl-dev', 'zlib1g-dev:amd64'] 4m31.3s DUMP: dpkg: warning: ignoring request to remove binutils which isn't installed (Reading database ... 5401 files and directories currently installed.) Purging configuration files for binutils-common:amd64 (2.42-2) ... dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove cd-hit which isn't installed Purging configuration files for cpp (4:13.2.0-7) ... dpkg: warning: ignoring request to remove cpp-12 which isn't installed dpkg: warning: ignoring request to remove cpp-13 which isn't installed dpkg: warning: ignoring request to remove cpp-13-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove cpp-x86-64-linux-gnu which isn't installed Purging configuration files for fontconfig-config (2.15.0-1) ... Purging configuration files for fonts-dejavu-core (2.37-8) ... dpkg: warning: ignoring request to remove fonts-dejavu-extra which isn't installed Purging configuration files for fonts-dejavu-mono (2.37-8) ... Purging configuration files for fonts-urw-base35 (20200910-7) ... dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-12 which isn't installed dpkg: warning: ignoring request to remove g++-13 which isn't installed dpkg: warning: ignoring request to remove g++-13-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove g++-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-12 which isn't installed dpkg: warning: ignoring request to remove gcc-13 which isn't installed dpkg: warning: ignoring request to remove gcc-13-base which isn't installed dpkg: warning: ignoring request to remove gcc-13-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove gcc-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove libasan8 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-dev which isn't installed dpkg: warning: ignoring request to remove libboost1.83-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-4) ... dpkg: warning: ignoring request to remove libctf-nobfd0 which isn't installed dpkg: warning: ignoring request to remove libctf0 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 libexpat1-dev 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 libgcc-12-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-13-dev which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.78.4-1) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgprofng0 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhwasan0 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libisl23 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjansson4 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed Purging configuration files for libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore 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 liblbfgsb0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libopenblas-dev which isn't installed dpkg: warning: ignoring request to remove libopenblas-pthread-dev which isn't installed dpkg: warning: ignoring request to remove libopenblas0 which isn't installed dpkg: warning: ignoring request to remove libopenblas0-pthread which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libperl5.38 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpython3-all-dev which isn't installed dpkg: warning: ignoring request to remove libpython3-dev which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.11 which isn't installed dpkg: warning: ignoring request to remove libpython3.11-dev which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.8-1) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.12 which isn't installed dpkg: warning: ignoring request to remove libpython3.12-dev which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.2-1) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libsframe1 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 libstdc++-12-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-13-dev 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) ... dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libtsan2 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed 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 dpkg: warning: ignoring request to remove libxsimd-dev which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for mailcap (3.70+nmu1) ... Purging configuration files for media-types (10.1.0) ... dpkg: warning: ignoring request to remove mime-support which isn't installed dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-10) ... Purging configuration files for netbase (6.4) ... Purging configuration files for perl (5.38.2-3) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.38 which isn't installed Purging configuration files for python3 (3.11.6-1) ... dpkg: warning: ignoring request to remove python3-all which isn't installed dpkg: warning: ignoring request to remove python3-all-dev which isn't installed dpkg: warning: ignoring request to remove python3-beniget 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-decorator which isn't installed dpkg: warning: ignoring request to remove python3-dev which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-freetype which isn't installed dpkg: warning: ignoring request to remove python3-gast which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-packaging 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-ply which isn't installed dpkg: warning: ignoring request to remove python3-presto which isn't installed dpkg: warning: ignoring request to remove python3-pythran 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-scipy which isn't installed dpkg: warning: ignoring request to remove python3-setuptools which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed dpkg: warning: ignoring request to remove python3.11-dev which isn't installed Purging configuration files for python3.11-minimal (3.11.8-1) ... dpkg: warning: ignoring request to remove python3.12 which isn't installed dpkg: warning: ignoring request to remove python3.12-dev which isn't installed Purging configuration files for python3.12-minimal (3.12.2-1) ... Purging configuration files for readline-common (8.2-3) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed Purging configuration files for sgml-base (1.31) ... dpkg: warning: ignoring request to remove vsearch which isn't installed Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+23) ... dpkg: warning: while removing x11-common, directory '/etc/init.d' not empty so not removed dpkg: warning: ignoring request to remove xfonts-encodings which isn't installed Purging configuration files for xfonts-utils (1:7.7+6) ... Purging configuration files for xml-core (0.19) ... dpkg: warning: ignoring request to remove xtl-dev which isn't installed dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cd-hit', 'cpp', 'cpp-12', 'cpp-13', 'cpp-13-x86-64-linux-gnu', 'cpp-x86-64-linux-gnu', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-urw-base35', 'g++', 'g++-12', 'g++-13', 'g++-13-x86-64-linux-gnu', 'g++-x86-64-linux-gnu', 'gcc', 'gcc-12', 'gcc-13', 'gcc-13-base:amd64', 'gcc-13-x86-64-linux-gnu', 'gcc-x86-64-linux-gnu', 'libasan8:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcc1-0:amd64', 'libcrypt-dev:amd64', 'libctf-nobfd0:amd64', 'libctf0:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-12-dev:amd64', 'libgcc-13-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgprofng0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libimagequant0:amd64', 'libisl23:amd64', 'libitm1:amd64', 'libjansson4:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libncursesw6:amd64', 'libnsl-dev:amd64', 'libnsl2:amd64', 'libopenblas-dev:amd64', 'libopenblas-pthread-dev:amd64', 'libopenblas0:amd64', 'libopenblas0-pthread:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpython3-all-dev:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12:amd64', 'libpython3.12-dev:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8:amd64', 'libsframe1:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-13-dev:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc-dev:amd64', 'libtirpc3:amd64', 'libtsan2:amd64', 'libubsan1: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', 'libxsimd-dev:amd64', 'linux-libc-dev', 'mailcap', 'media-types', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'python3', 'python3-all', 'python3-all-dev', 'python3-beniget', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-freetype', 'python3-gast', 'python3-lib2to3', 'python3-minimal', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-ply', 'python3-presto', 'python3-pythran', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-tz', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-dev', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'sgml-base', 'vsearch', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'xtl-dev', 'zlib1g-dev:amd64'] 4m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', 'presto'] 4m31.3s DUMP: dpkg: warning: ignoring request to remove presto which isn't installed 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', 'presto'] 4m31.3s INFO: Running scripts post_purge 4m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_purge_exceptions'] 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_purge_exceptions'] 4m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', '--pending'] 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--purge', '--pending'] 4m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--remove', '--pending'] 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg', '--remove', '--pending'] 4m31.3s INFO: Running scripts post_test 4m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_test_exceptions'] 4m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'tmp/scripts/post_test_exceptions'] 4m31.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 4m31.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 4m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-divert', '--list'] 4m31.9s DUMP: local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib 4m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'dpkg-divert', '--list'] 4m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'clean'] 4m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb', 'apt-get', 'clean'] 4m32.0s DEBUG: Recording chroot state 4m33.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/shm'] 4m33.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/shm'] 4m33.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/console'] 4m33.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/console'] 4m33.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/ptmx'] 4m33.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/ptmx'] 4m33.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts'] 4m33.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/dev/pts'] 4m33.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/proc'] 4m33.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb/proc'] 4m33.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 4m33.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_3luvmdb'] 4m33.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_3luvmdb 4m33.5s INFO: PASS: Upgrading between Debian distributions. 4m33.5s INFO: PASS: All tests. 4m33.5s INFO: piuparts run ends. ret=0 End: 2024-02-19 22:03:13 GMT