Start: 2024-09-21 04:08:35 GMT Package: spades Version: 3.15.5+dfsg-7 Installed-Size: 38720 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 4.0), libgomp1 (>= 6), libnlopt0 (>= 2.6.1), libssw0 (>= 1.1), libstdc++6 (>= 13.1), zlib1g (>= 1:1.2.3.3), python3:any, python3, python3-joblib, python3-packaging, python3-yaml, bwa, bamtools, samtools Description: genome assembler for single-cell and isolates data sets Homepage: http://cab.spbu.ru/software/spades/ Description-md5: d8ff9082fb3dd433b6c561c43ac72ddb Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, implemented-in::python, interface::commandline, role::program, scope::utility, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/s/spades/spades_3.15.5+dfsg-7_amd64.deb Size: 9019980 MD5sum: 4df634c754bc0623d4572795717bc376 SHA256: 217dc4ffc193da377c6af55f155f1eb7bde8393e7b8bc6857172f86089b7a118 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 --scriptsdir /etc/piuparts/scripts-no-usr-share-doc --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt spades=3.15.5+dfsg-7 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.4~202408201642~1.4.3-11-g36a88c35 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 --scriptsdir /etc/piuparts/scripts-no-usr-share-doc --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt spades=3.15.5+dfsg-7 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-32-amd64 #1 SMP Debian 5.10.223-1 (2024-08-10) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmprwztsygh 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmprwztsygh 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmprwztsygh', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmprwztsygh', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmprwztsygh/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmprwztsygh/proc'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmprwztsygh/tmp/scripts/ 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts-no-usr-share-doc to /srv/piuparts.debian.org/tmp/tmprwztsygh/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'update'] 0m3.0s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9955 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7308 kB] Fetched 17.5 MB in 2s (8745 kB/s) Reading package lists... 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'update'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.9s DUMP: 55031bf898a4369d9ace0d98b3e358a1 - 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.9s INFO: Running scripts post_setup 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_disable_usr_share_doc'] 0m3.9s DUMP: dpkg-query: no packages found matching systemd-sysv dpkg-query: no packages found matching sysv-rc 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_disable_usr_share_doc'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_dummy_users'] 0m4.4s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_dummy_users'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_forbid_home'] 0m4.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_forbid_home'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.4s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_minimize'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_minimize'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_zz_backports'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_setup_zz_backports'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'clean'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'clean'] 0m4.5s DEBUG: Recording chroot state 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DUMP: install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1+b1 install ok installed bsdutils bsdutils 1:2.40.2-8 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-5 install ok installed gpgv gpgv 2.2.43-8+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libblkid1:amd64 libblkid1 2.40.2-8 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-2 install ok installed libc6:amd64 libc6 2.40-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-5 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-8 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-8 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-5 install ok installed libsystemd0:amd64 libsystemd0 256.6-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libudev1:amd64 libudev1 256.6-1 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-8 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-8 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-8 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.10-2 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-8 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-divert', '--list'] 0m5.1s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-divert', '--list'] 0m5.1s INFO: Running scripts is_testable 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/is_testable_uninstallable'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/is_testable_uninstallable'] 0m5.1s INFO: apt-cache does not know about any of the requested packages 0m5.1s INFO: Running scripts pre_test 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_test_root_password'] 0m5.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_test_root_password'] 0m5.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m5.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m5.9s DEBUG: No broken symlinks as far as we can find. 0m5.9s INFO: Running scripts pre_install 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_database-server'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_database-server'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_exceptions'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_exceptions'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_extras'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m6.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m7.0s DEBUG: No broken symlinks as far as we can find. 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-cache', 'policy'] 0m7.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-cache', 'policy'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-cache', 'policy', 'spades'] 0m7.8s DUMP: spades: Installed: (none) Candidate: 3.15.5+dfsg-7 Version table: 3.15.5+dfsg-7 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-cache', 'policy', 'spades'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', '-y', 'install', 'spades=3.15.5+dfsg-7'] 0m17.1s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bamtools bwa libbamtools2.5.2 libbrotli1 libcurl3t64-gnutls libdeflate0 libexpat1 libgomp1 libgssapi-krb5-2 libhts3t64 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnlopt0 libnsl2 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libssw0 libtirpc-common libtirpc3t64 libyaml-0-2 media-types netbase procps python3 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-joblib python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-typeguard python3-typing-extensions python3-yaml python3.12 python3.12-minimal readline-common samtools Suggested packages: krb5-doc krb5-user python3-doc python3-tk python3-venv python-joblib-doc python3-setuptools python3.12-venv python3.12-doc binutils binfmt-support readline-doc cwltool Recommended packages: perl ca-certificates krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules psmisc linux-sysctl-defaults python3-numpy python3-pytest python3-simplejson python3-psutil The following NEW packages will be installed: bamtools bwa libbamtools2.5.2 libbrotli1 libcurl3t64-gnutls libdeflate0 libexpat1 libgomp1 libgssapi-krb5-2 libhts3t64 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnlopt0 libnsl2 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libssw0 libtirpc-common libtirpc3t64 libyaml-0-2 media-types netbase procps python3 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-joblib python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-typeguard python3-typing-extensions python3-yaml python3.12 python3.12-minimal readline-common samtools spades 0 upgraded, 61 newly installed, 0 to remove and 0 not upgraded. Need to get 22.6 MB of archives. After this operation, 85.8 MB of additional disk space will be used. 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sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:16 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-5 [69.3 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libpython3.12-stdlib amd64 3.12.6-1 [1963 kB] Get:20 http://deb.debian.org/debian sid/main amd64 python3.12 amd64 3.12.6-1 [669 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get:22 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-5 [64.7 kB] Get:24 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-5 [878 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-6 [159 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libjsoncpp25 amd64 1.9.5-6+b2 [81.9 kB] Get:27 http://deb.debian.org/debian sid/main amd64 bamtools amd64 2.5.2+dfsg-6 [206 kB] Get:28 http://deb.debian.org/debian sid/main amd64 bwa amd64 0.7.18-1 [212 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.4.0-1 [63.1 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:38 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libcurl3t64-gnutls amd64 8.10.1-1 [359 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-5 [137 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libncurses6 amd64 6.5-2 [104 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libnlopt0 amd64 2.7.1-5+b4 [174 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libssw0 amd64 1.1-15 [20.9 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1+b1 [52.6 kB] Get:49 http://deb.debian.org/debian sid/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get:50 http://deb.debian.org/debian sid/main amd64 python3-more-itertools all 10.4.0-1 [63.7 kB] Get:51 http://deb.debian.org/debian sid/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get:52 http://deb.debian.org/debian sid/main amd64 python3-typeguard all 4.3.0-1 [36.5 kB] Get:53 http://deb.debian.org/debian sid/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get:54 http://deb.debian.org/debian sid/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get:55 http://deb.debian.org/debian sid/main amd64 python3-jaraco.functools all 4.0.2-1 [11.7 kB] Get:56 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 74.1.2-2 [213 kB] Get:57 http://deb.debian.org/debian sid/main amd64 python3-joblib all 1.3.2-3 [216 kB] Get:58 http://deb.debian.org/debian sid/main amd64 python3-packaging all 24.1-1 [45.8 kB] Get:59 http://deb.debian.org/debian sid/main amd64 python3-yaml amd64 6.0.2-1 [134 kB] Get:60 http://deb.debian.org/debian sid/main amd64 samtools amd64 1.20-3 [653 kB] Get:61 http://deb.debian.org/debian sid/main amd64 spades amd64 3.15.5+dfsg-7 [9020 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 22.6 MB in 0s (78.8 MB/s) Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5144 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.6-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.6-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.6-1_amd64.deb ... Unpacking python3.12-minimal (3.12.6-1) ... Setting up libpython3.12-minimal:amd64 (3.12.6-1) ... Setting up libexpat1:amd64 (2.6.3-1) ... Setting up python3.12-minimal (3.12.6-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5464 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... 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Unpacking libdeflate0:amd64 (1.21-1) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../20-libgomp1_14.2.0-5_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-5) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../21-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../22-libhts3t64_1.20+ds-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../23-libncurses6_6.5-2_amd64.deb ... Unpacking libncurses6:amd64 (6.5-2) ... Selecting previously unselected package libnlopt0:amd64. Preparing to unpack .../24-libnlopt0_2.7.1-5+b4_amd64.deb ... Unpacking libnlopt0:amd64 (2.7.1-5+b4) ... Selecting previously unselected package libssw0:amd64. Preparing to unpack .../25-libssw0_1.1-15_amd64.deb ... Unpacking libssw0:amd64 (1.1-15) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../26-libyaml-0-2_0.2.5-1+b1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-1+b1) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../27-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../28-python3-more-itertools_10.4.0-1_all.deb ... Unpacking python3-more-itertools (10.4.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../29-python3-typing-extensions_4.12.2-2_all.deb ... Unpacking python3-typing-extensions (4.12.2-2) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../30-python3-typeguard_4.3.0-1_all.deb ... Unpacking python3-typeguard (4.3.0-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../31-python3-inflect_7.3.1-2_all.deb ... Unpacking python3-inflect (7.3.1-2) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../32-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../33-python3-jaraco.functools_4.0.2-1_all.deb ... Unpacking python3-jaraco.functools (4.0.2-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../34-python3-pkg-resources_74.1.2-2_all.deb ... Unpacking python3-pkg-resources (74.1.2-2) ... Selecting previously unselected package python3-joblib. Preparing to unpack .../35-python3-joblib_1.3.2-3_all.deb ... Unpacking python3-joblib (1.3.2-3) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../36-python3-packaging_24.1-1_all.deb ... Unpacking python3-packaging (24.1-1) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../37-python3-yaml_6.0.2-1_amd64.deb ... Unpacking python3-yaml (6.0.2-1) ... Selecting previously unselected package samtools. Preparing to unpack .../38-samtools_1.20-3_amd64.deb ... Unpacking samtools (1.20-3) ... Selecting previously unselected package spades. Preparing to unpack .../39-spades_3.15.5+dfsg-7_amd64.deb ... Unpacking spades (3.15.5+dfsg-7) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libyaml-0-2:amd64 (0.2.5-1+b1) ... Setting up bwa (0.7.18-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libbrotli1:amd64 (1.1.0-2+b4) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.63.0-1) ... Setting up libdeflate0:amd64 (1.21-1) ... Setting up libnlopt0:amd64 (2.7.1-5+b4) ... Setting up libgomp1:amd64 (14.2.0-5) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libncurses6:amd64 (6.5-2) ... Setting up libproc2-0:amd64 (2:4.0.4-5) ... Setting up libjsoncpp25:amd64 (1.9.5-6+b2) ... Setting up libncursesw6:amd64 (6.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libbamtools2.5.2:amd64 (2.5.2+dfsg-6) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libnghttp3-9:amd64 (1.4.0-1) ... Setting up bamtools (2.5.2+dfsg-6) ... Setting up procps (2:4.0.4-5) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:amd64 (1.6.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.0-7) ... Setting up libssw0:amd64 (1.1-15) ... Setting up readline-common (8.2-5) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Setting up libcurl3t64-gnutls:amd64 (8.10.1-1) ... Setting up libnsl2:amd64 (1.3.0-3+b2) ... Setting up libhts3t64:amd64 (1.20+ds-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.6-1) ... Setting up python3.12 (3.12.6-1) ... Setting up samtools (1.20-3) ... Setting up libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3 (3.12.6-1) ... /usr/share/spades/spades_pipeline/support.py:531: SyntaxWarning: invalid escape sequence '\d' return [atoi(c) for c in re.split("(\d+)", text)] Setting up python3-autocommand (2.2.2-3) ... Setting up python3-packaging (24.1-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-more-itertools (10.4.0-1) ... Setting up python3-jaraco.functools (4.0.2-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.3.0-1) ... Setting up python3-yaml (6.0.2-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-joblib (1.3.2-3) ... Setting up spades (3.15.5+dfsg-7) ... Processing triggers for libc-bin (2.40-2) ... 0m17.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', '-y', 'install', 'spades=3.15.5+dfsg-7'] 0m17.1s INFO: Running scripts post_install 0m17.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_install_exceptions'] 0m17.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_install_exceptions'] 0m17.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m17.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m18.3s ERROR: WARN: Broken symlinks: /usr/share/doc/python3.12/python-policy.txt.gz -> ../python3/python-policy.txt.gz (python3) /usr/share/doc/python3.12/changelog.gz -> NEWS.gz (python3.12) 0m18.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmprwztsygh', '-ac', '--ignore-obsolete'] 0m19.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmprwztsygh', '-ac', '--ignore-obsolete'] 0m19.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m19.4s DUMP: 0.15.6 0m19.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m19.4s INFO: Running adequate version 0.15.6 now. 0m19.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'spades'] 0m19.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'spades'] 0m19.5s INFO: Running scripts pre_remove 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_exceptions'] 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/pre_remove_exceptions'] 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m20.6s DUMP: install ok installed apt apt 2.9.8 install ok installed bamtools bamtools 2.5.2+dfsg-6 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1+b1 install ok installed bsdutils bsdutils 1:2.40.2-8 install ok installed bwa bwa 0.7.18-1 install ok installed coreutils coreutils 9.4-3.1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-5 install ok installed gpgv gpgv 2.2.43-8+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libbamtools2.5.2:amd64 libbamtools2.5.2 2.5.2+dfsg-6 install ok installed libblkid1:amd64 libblkid1 2.40.2-8 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-2 install ok installed libc6:amd64 libc6 2.40-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.10.1-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libdeflate0:amd64 libdeflate0 1.21-1 install ok installed libexpat1:amd64 libexpat1 2.6.3-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-5 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-5 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhts3t64:amd64 libhts3t64 1.20+ds-1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libjsoncpp25:amd64 libjsoncpp25 1.9.5-6+b2 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-8 install ok installed libncurses6:amd64 libncurses6 6.5-2 install ok installed libncursesw6:amd64 libncursesw6 6.5-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.63.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.4.0-1 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.6.0-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.6.0-1 install ok installed libnlopt0:amd64 libnlopt0 2.7.1-5+b4 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-5 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.12.6-1 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.6-1 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.6-1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b4 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-8 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.0-7 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-1 install ok installed libssw0:amd64 libssw0 1.1-15 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-5 install ok installed libsystemd0:amd64 libsystemd0 256.6-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3 install ok installed libudev1:amd64 libudev1 256.6-1 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-8 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-1+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-8 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed media-types media-types 10.1.0 install ok installed mount mount 2.40.2-8 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed netbase netbase 6.4 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-1 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.38.2-5 install ok installed procps procps 2:4.0.4-5 install ok installed python3 python3 3.12.6-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-inflect python3-inflect 7.3.1-2 install ok installed python3-jaraco.context python3-jaraco.context 6.0.0-1 install ok installed python3-jaraco.functools python3-jaraco.functools 4.0.2-1 install ok installed python3-joblib python3-joblib 1.3.2-3 install ok installed python3-minimal python3-minimal 3.12.6-1 install ok installed python3-more-itertools python3-more-itertools 10.4.0-1 install ok installed python3-packaging python3-packaging 24.1-1 install ok installed python3-pkg-resources python3-pkg-resources 74.1.2-2 install ok installed python3-typeguard python3-typeguard 4.3.0-1 install ok installed python3-typing-extensions python3-typing-extensions 4.12.2-2 install ok installed python3-yaml python3-yaml 6.0.2-1 install ok installed python3.12 python3.12 3.12.6-1 install ok installed python3.12-minimal python3.12-minimal 3.12.6-1 install ok installed readline-common readline-common 8.2-5 install ok installed samtools samtools 1.20-3 install ok installed sed sed 4.9-2 install ok installed spades spades 3.15.5+dfsg-7 install ok installed sysvinit-utils sysvinit-utils 3.10-2 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-8 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'remove', 'bamtools', 'bwa', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'netbase', 'procps', 'python3', 'python3-autocommand', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-packaging', 'python3-pkg-resources', 'python3-typeguard', 'python3-typing-extensions', 'python3-yaml', 'python3.12', 'python3.12-minimal', 'readline-common', 'samtools', 'spades'] 0m22.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bamtools bwa libbamtools2.5.2 libbrotli1 libcurl3t64-gnutls libdeflate0 libexpat1 libgomp1 libgssapi-krb5-2 libhts3t64 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnlopt0 libnsl2 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.12-minimal libpython3.12-stdlib libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1t64 libssw0 libtirpc-common libtirpc3t64 libyaml-0-2 media-types netbase procps python3 python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-joblib python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-typeguard python3-typing-extensions python3-yaml python3.12 python3.12-minimal readline-common samtools spades 0 upgraded, 0 newly installed, 61 to remove and 0 not upgraded. After this operation, 85.8 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 ... 7107 files and directories currently installed.) Removing spades (3.15.5+dfsg-7) ... Removing bamtools (2.5.2+dfsg-6) ... Removing bwa (0.7.18-1) ... Removing libbamtools2.5.2:amd64 (2.5.2+dfsg-6) ... Removing samtools (1.20-3) ... Removing libhts3t64:amd64 (1.20+ds-1) ... Removing libcurl3t64-gnutls:amd64 (8.10.1-1) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libdeflate0:amd64 (1.21-1) ... Removing python3-yaml (6.0.2-1) ... Removing python3-joblib (1.3.2-3) ... Removing python3-pkg-resources (74.1.2-2) ... Removing python3-inflect (7.3.1-2) ... Removing python3-typeguard (4.3.0-1) ... Removing python3-typing-extensions (4.12.2-2) ... Removing libgomp1:amd64 (14.2.0-5) ... Removing libhtscodecs2:amd64 (1.6.1-1) ... Removing libjsoncpp25:amd64 (1.9.5-6+b2) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Removing libncurses6:amd64 (6.5-2) ... Removing procps (2:4.0.4-5) ... Removing libnghttp2-14:amd64 (1.63.0-1) ... Removing libnghttp3-9:amd64 (1.4.0-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Removing libngtcp2-16:amd64 (1.6.0-1) ... Removing libnlopt0:amd64 (2.7.1-5+b4) ... Removing libproc2-0:amd64 (2:4.0.4-5) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libssh2-1t64:amd64 (1.11.0-7) ... Removing libssw0:amd64 (1.1-15) ... Removing libyaml-0-2:amd64 (0.2.5-1+b1) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-jaraco.context (6.0.0-1) ... Removing python3-jaraco.functools (4.0.2-1) ... Removing python3-more-itertools (10.4.0-1) ... Removing python3-packaging (24.1-1) ... Removing python3 (3.12.6-1) ... Removing python3-minimal (3.12.6-1) ... Removing python3.12 (3.12.6-1) ... Removing python3.12-minimal (3.12.6-1) ... Removing libexpat1:amd64 (2.6.3-1) ... Removing libpython3-stdlib:amd64 (3.12.6-1) ... Removing libpython3.12-stdlib:amd64 (3.12.6-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-3+b2) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libncursesw6:amd64 (6.5-2) ... Removing libpython3.12-minimal:amd64 (3.12.6-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.2-5) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing readline-common (8.2-5) ... Processing triggers for libc-bin (2.40-2) ... 0m22.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'remove', 'bamtools', 'bwa', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'netbase', 'procps', 'python3', 'python3-autocommand', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-packaging', 'python3-pkg-resources', 'python3-typeguard', 'python3-typing-extensions', 'python3-yaml', 'python3.12', 'python3.12-minimal', 'readline-common', 'samtools', 'spades'] 0m22.7s INFO: Running scripts post_remove 0m22.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_remove_exceptions'] 0m22.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_remove_exceptions'] 0m22.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', 'bamtools', 'bwa', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'netbase', 'procps', 'python3', 'python3-autocommand', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-packaging', 'python3-pkg-resources', 'python3-typeguard', 'python3-typing-extensions', 'python3-yaml', 'python3.12', 'python3.12-minimal', 'readline-common', 'samtools'] 0m22.8s DUMP: dpkg: warning: ignoring request to remove bamtools which isn't installed dpkg: warning: ignoring request to remove bwa which isn't installed dpkg: warning: ignoring request to remove libbamtools2.5.2 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed (Reading database ... 5156 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libjsoncpp25 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 libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed dpkg: warning: ignoring request to remove libnlopt0 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.6-1) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libssw0 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3) ... dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed Purging configuration files for media-types (10.1.0) ... Purging configuration files for netbase (6.4) ... Purging configuration files for procps (2:4.0.4-5) ... Purging configuration files for python3 (3.12.6-1) ... dpkg: warning: ignoring request to remove python3-autocommand which isn't installed dpkg: warning: ignoring request to remove python3-inflect which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.context which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.functools which isn't installed dpkg: warning: ignoring request to remove python3-joblib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-typeguard which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.12 which isn't installed Purging configuration files for python3.12-minimal (3.12.6-1) ... Purging configuration files for readline-common (8.2-5) ... dpkg: warning: ignoring request to remove samtools which isn't installed 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', 'bamtools', 'bwa', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libyaml-0-2:amd64', 'media-types', 'netbase', 'procps', 'python3', 'python3-autocommand', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-packaging', 'python3-pkg-resources', 'python3-typeguard', 'python3-typing-extensions', 'python3-yaml', 'python3.12', 'python3.12-minimal', 'readline-common', 'samtools'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', 'spades'] 0m22.8s DUMP: dpkg: warning: ignoring request to remove spades which isn't installed 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', 'spades'] 0m22.8s INFO: Running scripts post_purge 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_purge_exceptions'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_purge_exceptions'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', '--pending'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--purge', '--pending'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--remove', '--pending'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg', '--remove', '--pending'] 0m22.8s INFO: Running scripts post_test 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_test_exceptions'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'tmp/scripts/post_test_exceptions'] 0m22.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m23.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m23.9s DEBUG: No broken symlinks as far as we can find. 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-divert', '--list'] 0m23.9s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'dpkg-divert', '--list'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'clean'] 0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmprwztsygh', 'apt-get', 'clean'] 0m24.0s DEBUG: Recording chroot state 0m24.4s INFO: PASS: Installation and purging test. 0m24.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/shm'] 0m24.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/shm'] 0m24.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/console'] 0m24.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/console'] 0m24.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/ptmx'] 0m24.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/ptmx'] 0m24.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts'] 0m24.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/dev/pts'] 0m24.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/proc'] 0m24.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmprwztsygh/proc'] 0m24.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m25.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmprwztsygh'] 0m25.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmprwztsygh 0m25.0s INFO: PASS: All tests. 0m25.0s INFO: piuparts run ends. ret=0 End: 2024-09-21 04:09:01 GMT