Start: 2022-09-03 03:26:54 GMT [testing] Package: sga Version: 0.10.15-7 Installed-Size: 2415 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 9), zlib1g (>= 1:1.1.4), python3:any, perl:any, samtools, python3-ruffus, python3-pysam Recommends: abyss Description: de novo genome assembler that uses string graphs Homepage: https://github.com/jts/sga Description-md5: 4551d08cc0a7516892fb0af250b69e37 Section: science Priority: optional Filename: pool/main/s/sga/sga_0.10.15-7_amd64.deb Size: 805192 MD5sum: 50eb109df371917c22caabf81180abff SHA256: e63dcd9e8b789b08b49a81c1db71fd68cd986316332fbd4ae1f5470c2fde5082 [sid] Package: sga Source: sga (0.10.15-7) Version: 0.10.15-7+b1 Installed-Size: 2432 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4), python3:any, perl:any, samtools, python3-ruffus, python3-pysam Recommends: abyss Description: de novo genome assembler that uses string graphs Homepage: https://github.com/jts/sga Description-md5: 4551d08cc0a7516892fb0af250b69e37 Section: science Priority: optional Filename: pool/main/s/sga/sga_0.10.15-7+b1_amd64.deb Size: 831952 MD5sum: 4725595ed4f2c6c61fe975c06751c729 SHA256: b460ca89bcd75fc7cec2069bdc1866bb05e20f938ddad9693b96279ba05a5f08 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt sga=0.10.15-7+b1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt sga=0.10.15-7+b1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 4.19.0-21-amd64 #1 SMP Debian 4.19.249-2 (2022-06-30) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmphf5pnnlw 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmphf5pnnlw 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/proc'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/proc'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts'] 0m2.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/ptmx'] 0m2.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/ptmx'] 0m2.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/console'] 0m2.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/console'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/shm'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/shm'] 0m2.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.2s DEBUG: Created policy-rc.d and chmodded it. 0m2.2s DEBUG: Created resolv.conf. 0m2.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmphf5pnnlw/tmp/scripts/ 0m2.2s INFO: Running scripts post_chroot_unpack 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'update'] 0m4.4s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [157 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8473 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5780 kB] Fetched 14.4 MB in 2s (8968 kB/s) Reading package lists... 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'update'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-yf', 'dist-upgrade'] 0m5.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 liblz4-1 libsystemd0 libudev1 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4320 kB of archives. After this operation, 9216 B of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libc6 amd64 2.34-7 [2766 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libc-bin amd64 2.34-7 [898 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 liblz4-1 amd64 1.9.4-1 [62.9 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libsystemd0 amd64 251.4-3 [410 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 251.4-3 [184 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4320 kB in 0s (72.5 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 ... 6591 files and directories currently installed.) Preparing to unpack .../libc6_2.34-7_amd64.deb ... Unpacking libc6:amd64 (2.34-7) over (2.34-4) ... Setting up libc6:amd64 (2.34-7) ... (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 ... 6591 files and directories currently installed.) Preparing to unpack .../libc-bin_2.34-7_amd64.deb ... Unpacking libc-bin (2.34-7) over (2.34-4) ... Setting up libc-bin (2.34-7) ... (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 ... 6591 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.9.4-1_amd64.deb ... Unpacking liblz4-1:amd64 (1.9.4-1) over (1.9.3-2) ... Setting up liblz4-1:amd64 (1.9.4-1) ... (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 ... 6591 files and directories currently installed.) Preparing to unpack .../libsystemd0_251.4-3_amd64.deb ... Unpacking libsystemd0:amd64 (251.4-3) over (251.3-1) ... Setting up libsystemd0:amd64 (251.4-3) ... (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 ... 6591 files and directories currently installed.) Preparing to unpack .../libudev1_251.4-3_amd64.deb ... Unpacking libudev1:amd64 (251.4-3) over (251.3-1) ... Setting up libudev1:amd64 (251.4-3) ... Processing triggers for libc-bin (2.34-7) ... 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-yf', 'dist-upgrade'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.0s DUMP: 6d93817533cd25761d067f9e803972c1 - 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.0s INFO: Running scripts post_setup 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_dummy_users'] 0m6.9s DUMP: useradd warning: dummy1000's uid 1000 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1001's uid 1001 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1002's uid 1002 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1003's uid 1003 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1004's uid 1004 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1005's uid 1005 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1006's uid 1006 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1007's uid 1007 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1008's uid 1008 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1009's uid 1009 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1010's uid 1010 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_dummy_users'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_forbid_home'] 0m6.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_forbid_home'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.9s 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' 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_minimize'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_minimize'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_zz_backports'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_setup_zz_backports'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.9s DUMP: install ok installed adduser adduser 3.128 install ok installed apt apt 2.5.2 install ok installed base-files base-files 12.2 install ok installed base-passwd base-passwd 3.6.0 install ok installed bash bash 5.1-6.1+b1 install ok installed bsdutils bsdutils 1:2.38.1-1 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-8 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.3 install ok installed diffutils diffutils 1:3.8-1 install ok installed dpkg dpkg 1.21.9 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-1 install ok installed gpgv gpgv 2.2.35-3 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.64 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.2 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1+b1 install ok installed libblkid1:amd64 libblkid1 2.38.1-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.34-7 install ok installed libc6:amd64 libc6 2.34-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b1 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.28-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.264 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-4 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-1 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1 install ok installed libgnutls30:amd64 libgnutls30 3.7.7-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.45-2 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1 install ok installed libmount1:amd64 libmount1 2.38.1-1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-2 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-2 install ok installed libpam-runtime libpam-runtime 1.5.2-2 install ok installed libpam0g:amd64 libpam0g 1.5.2-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-14 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b1 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b1 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-1 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-1 install ok installed libsystemd0:amd64 libsystemd0 251.4-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libudev1:amd64 libudev1 251.4-3 install ok installed libunistring2:amd64 libunistring2 1.0-1 install ok installed libuuid1:amd64 libuuid1 2.38.1-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.11.1+dfsg1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-1 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed passwd passwd 1:4.11.1+dfsg1-2 install ok installed perl-base perl-base 5.34.0-5 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.04-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022c-1 install ok installed util-linux util-linux 2.38.1-1 install ok installed util-linux-extra util-linux-extra 2.38.1-1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-4.1 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.9s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m7.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m7.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m7.2s INFO: Running scripts is_testable 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/is_testable_uninstallable'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/is_testable_uninstallable'] 0m7.3s INFO: Running scripts pre_test 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_test_exceptions'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_test_exceptions'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_test_root_password'] 0m7.3s DUMP: New password: Retype new password: passwd: password updated successfully 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_test_root_password'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'show', '--no-all-versions', 'sga'] 0m7.4s DUMP: Package: sga Version: 0.10.15-7 Installed-Size: 2415 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 9), zlib1g (>= 1:1.1.4), python3:any, perl:any, samtools, python3-ruffus, python3-pysam Recommends: abyss Description-en: de novo genome assembler that uses string graphs The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads. . SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads. Description-md5: 4551d08cc0a7516892fb0af250b69e37 Homepage: https://github.com/jts/sga Section: science Priority: optional Filename: pool/main/s/sga/sga_0.10.15-7_amd64.deb Size: 805192 MD5sum: 50eb109df371917c22caabf81180abff SHA256: e63dcd9e8b789b08b49a81c1db71fd68cd986316332fbd4ae1f5470c2fde5082 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'show', '--no-all-versions', 'sga'] 0m7.4s INFO: apt-cache knows about the following packages: sga 0m7.4s INFO: Running scripts pre_install 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m7.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m7.6s DUMP: sga: Installed: (none) Candidate: 0.10.15-7 Version table: 0.10.15-7 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga'] 0m18.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: fontconfig fontconfig-config fonts-dejavu-core graphviz libann0 libbamtools2.5.1 libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts3 libhtscodecs2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.5-0 liblerc4 libltdl7 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libperl5.34 libpixman-1-0 libpng16-16 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl3 libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxmu6 libxpm4 libxrender1 libxt6 media-types perl perl-modules-5.34 python3 python3-minimal python3-pysam python3-ruffus python3.10 python3.10-minimal readline-common samtools sensible-utils ucf x11-common Suggested packages: gsfonts graphviz-doc libgd-tools gdbm-l10n krb5-doc krb5-user perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python3.10-venv python3.10-doc binutils binfmt-support readline-doc cwltool Recommended packages: fonts-liberation2 ca-certificates libglib2.0-data shared-mime-info xdg-user-dirs libgts-bin krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules netbase abyss The following NEW packages will be installed: fontconfig fontconfig-config fonts-dejavu-core graphviz libann0 libbamtools2.5.1 libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts3 libhtscodecs2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.5-0 liblerc4 libltdl7 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libperl5.34 libpixman-1-0 libpng16-16 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl3 libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxmu6 libxpm4 libxrender1 libxt6 media-types perl perl-modules-5.34 python3 python3-minimal python3-pysam python3-ruffus python3.10 python3.10-minimal readline-common samtools sensible-utils sga ucf x11-common 0 upgraded, 101 newly installed, 0 to remove and 0 not upgraded. Need to get 36.3 MB of archives. After this operation, 133 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.34 all 5.34.0-5 [2850 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-1+b1 [83.0 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-1+b1 [58.9 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.34 amd64 5.34.0-5 [4177 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.34.0-5 [298 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.5-2 [2030 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-minimal amd64 3.10.6-1 [828 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.4.8-1 [109 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.10-minimal amd64 3.10.6-1 [1993 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.10.6-1 [38.7 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 8.0.0 [33.4 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20-1 [65.7 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20-1 [111 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-1 [15.7 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20-1 [363 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20-1 [166 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2~rc2-2 [75.8 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2~rc2-2 [173 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.39.2-1 [838 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-stdlib amd64 3.10.6-1 [1685 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 python3.10 amd64 3.10.6-1 [545 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.10.6-1 [21.7 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.10.6-1 [38.2 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043 [74.0 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b4 [275 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.37-5 [290 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config all 2.13.1-4.4 [281 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.13.1-4.4 [350 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.13.1-4.4 [417 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libann0 amd64 1.1.2+doc-7 [25.3 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libcdt5 amd64 2.42.2-7 [62.2 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libcgraph6 amd64 2.42.2-7 [86.1 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.2-1 [164 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.12-1 [71.6 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-1 [170 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.2-2+b1 [277 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libtiff5 amd64 4.4.0-4 [314 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.6-1 [114 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.1-2 [308 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.1-2 [772 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libxpm4 amd64 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amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 2.7.4-1+b1 [1469 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2 [43.0 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.9+ds-1 [239 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.9+ds-1 [75.3 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.9+ds-1 [62.5 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libpathplan4 amd64 2.42.2-7 [64.3 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libgvc6 amd64 2.42.2-7 [696 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libgvpr2 amd64 2.42.2-7 [212 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 liblab-gamut1 amd64 2.42.2-7 [221 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1 [189 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libxmu6 amd64 2:1.1.3-3 [60.1 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libxaw7 amd64 2:1.0.14-1 [201 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 graphviz amd64 2.42.2-7 [636 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-10+b1 [158 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-7 [38.5 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-7 [78.1 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.12+dfsg-2+b1 [226 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.49.0-1 [81.3 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.84.0-2 [355 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-1 [116 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.2.2-1 [54.1 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.13+ds-2+b1 [397 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.3+20220423-2 [102 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 python3-pysam amd64 0.17.0+ds-2+b2 [1618 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 python3-ruffus all 2.8.4-4 [152 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 samtools amd64 1.13-4 [570 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 sga amd64 0.10.15-7 [805 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 36.3 MB in 0s (172 MB/s) Selecting previously unselected package perl-modules-5.34. (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 ... 6593 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.34_5.34.0-5_all.deb ... Unpacking perl-modules-5.34 (5.34.0-5) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-1+b1_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-1+b1) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Setting up libmd0:amd64 (1.0.4-2) ... Setting up sensible-utils (0.0.17) ... Setting up libmpdec3:amd64 (2.5.1-2) ... Setting up libthai-data (0.1.29-1) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libcdt5:amd64 (2.42.2-7) ... Setting up libkrb5-3:amd64 (1.20-1) ... Setting up libcgraph6:amd64 (2.42.2-7) ... Setting up libtiff5:amd64 (4.4.0-4) ... Setting up libbsd0:amd64 (0.11.6-1) ... Setting up readline-common (8.2~rc2-2) ... Setting up libgdbm6:amd64 (1.23-1+b1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libreadline8:amd64 (8.2~rc2-2) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libldap-2.5-0:amd64 (2.5.12+dfsg-2+b1) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-3) ... Setting up libgssapi-krb5-2:amd64 (1.20-1) ... Setting up libgdbm-compat4:amd64 (1.23-1+b1) ... Setting up ucf (3.0043) ... Setting up libgvpr2:amd64 (2.42.2-7) ... Setting up libx11-6:amd64 (2:1.8.1-2) ... Setting up libharfbuzz0b:amd64 (2.7.4-1+b1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libperl5.34:amd64 (5.34.0-5) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up fontconfig-config (2.13.1-4.4) ... Setting up libxext6:amd64 (2:1.3.4-1) ... Setting up libcurl3-gnutls:amd64 (7.84.0-2) ... Setting up perl (5.34.0-5) ... Setting up libxt6:amd64 (1:1.2.1-1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libfontconfig1:amd64 (2.13.1-4.4) ... Setting up fontconfig (2.13.1-4.4) ... Regenerating fonts cache... done. Setting up libhts3:amd64 (1.13+ds-2+b1) ... Setting up libxmu6:amd64 (2:1.1.3-3) ... Setting up libpango-1.0-0:amd64 (1.50.9+ds-1) ... Setting up libxaw7:amd64 (2:1.0.14-1) ... Setting up libcairo2:amd64 (1.16.0-6) ... Setting up samtools (1.13-4) ... Setting up libpython3.10-stdlib:amd64 (3.10.6-1) ... Setting up libgd3:amd64 (2.3.3-6) ... Setting up libpangoft2-1.0-0:amd64 (1.50.9+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.9+ds-1) ... Setting up libpython3-stdlib:amd64 (3.10.6-1) ... Setting up python3.10 (3.10.6-1) ... Setting up python3 (3.10.6-1) ... Setting up libgvc6 (2.42.2-7) ... Setting up graphviz (2.42.2-7) ... Setting up python3-pysam (0.17.0+ds-2+b2) ... Setting up python3-ruffus (2.8.4-4) ... Setting up sga (0.10.15-7) ... Processing triggers for libc-bin (2.34-7) ... 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga'] 0m18.5s INFO: Running scripts post_install 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m18.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m19.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m19.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmphf5pnnlw to sid 0m19.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m19.0s INFO: Running scripts pre_distupgrade 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_exceptions'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_exceptions'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'update'] 0m22.2s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [192 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9353 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6899 kB] Fetched 16.4 MB in 3s (6560 kB/s) Reading package lists... 0m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'update'] 0m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-yf', 'dist-upgrade'] 0m23.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libbamtools2.5.1 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libbamtools2.5.2 The following packages will be upgraded: bash dash libcurl3-gnutls libglib2.0-0 sga 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 4445 kB of archives. After this operation, 1365 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2~rc2-2 [1527 kB] Get:2 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.11+git20210903+057cd650a4ed-9 [114 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-2 [150 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libcurl3-gnutls amd64 7.85.0-1 [361 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libglib2.0-0 amd64 2.73.3-3 [1461 kB] Get:6 http://deb.debian.org/debian sid/main amd64 sga amd64 0.10.15-7+b1 [832 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4445 kB in 0s (77.6 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10770 files and directories currently installed.) Preparing to unpack .../bash_5.2~rc2-2_amd64.deb ... Unpacking bash (5.2~rc2-2) over (5.1-6.1+b1) ... Setting up bash (5.2~rc2-2) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10769 files and directories currently installed.) Preparing to unpack .../dash_0.5.11+git20210903+057cd650a4ed-9_amd64.deb ... Unpacking dash (0.5.11+git20210903+057cd650a4ed-9) over (0.5.11+git20210903+057cd650a4ed-8) ... Setting up dash (0.5.11+git20210903+057cd650a4ed-9) ... Selecting previously unselected package libbamtools2.5.2: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 ... 10769 files and directories currently installed.) Preparing to unpack .../libbamtools2.5.2_2.5.2+dfsg-2_amd64.deb ... Unpacking libbamtools2.5.2:amd64 (2.5.2+dfsg-2) ... Preparing to unpack .../libcurl3-gnutls_7.85.0-1_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.85.0-1) over (7.84.0-2) ... Preparing to unpack .../libglib2.0-0_2.73.3-3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.73.3-3) over (2.72.3-1+b1) ... Preparing to unpack .../sga_0.10.15-7+b1_amd64.deb ... Unpacking sga (0.10.15-7+b1) over (0.10.15-7) ... Setting up libglib2.0-0:amd64 (2.73.3-3) ... No schema files found: doing nothing. Setting up libcurl3-gnutls:amd64 (7.85.0-1) ... Setting up libbamtools2.5.2:amd64 (2.5.2+dfsg-2) ... Setting up sga (0.10.15-7+b1) ... Processing triggers for debianutils (5.7-0.3) ... Processing triggers for libc-bin (2.34-7) ... 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-yf', 'dist-upgrade'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m23.9s DUMP: afb7b2bdbdb92aed32a20921be4fc349 - 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'show', '--no-all-versions', 'sga'] 0m24.1s DUMP: Package: sga Source: sga (0.10.15-7) Version: 0.10.15-7+b1 Installed-Size: 2432 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4), python3:any, perl:any, samtools, python3-ruffus, python3-pysam Recommends: abyss Description-en: de novo genome assembler that uses string graphs The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads. . SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads. Description-md5: 4551d08cc0a7516892fb0af250b69e37 Homepage: https://github.com/jts/sga Section: science Priority: optional Filename: pool/main/s/sga/sga_0.10.15-7+b1_amd64.deb Size: 831952 MD5sum: 4725595ed4f2c6c61fe975c06751c729 SHA256: b460ca89bcd75fc7cec2069bdc1866bb05e20f938ddad9693b96279ba05a5f08 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'show', '--no-all-versions', 'sga'] 0m24.1s INFO: apt-cache knows about the following packages: sga 0m24.1s INFO: Running scripts pre_install 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m24.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m24.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m24.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m24.2s DUMP: sga: Installed: 0.10.15-7+b1 Candidate: 0.10.15-7+b1 Version table: *** 0.10.15-7+b1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m24.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m24.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga'] 0m24.6s DUMP: Reading package lists... Building dependency tree... Reading state information... sga is already the newest version (0.10.15-7+b1). The following package was automatically installed and is no longer required: libbamtools2.5.1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga'] 0m24.6s INFO: Running scripts post_install 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m24.6s INFO: Running scripts post_distupgrade 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_exceptions'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_exceptions'] 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_zz_backports'] 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_distupgrade_zz_backports'] 0m24.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m25.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m25.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m26.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m26.0s INFO: Running scripts pre_install 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_database-server'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_exceptions'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_extras'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m26.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m26.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m26.1s 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: 0m26.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy'] 0m26.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m26.1s DUMP: sga: Installed: 0.10.15-7+b1 Candidate: 0.10.15-7+b1 Version table: *** 0.10.15-7+b1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m26.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-cache', 'policy', 'sga'] 0m26.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga=0.10.15-7+b1'] 0m26.5s DUMP: Reading package lists... Building dependency tree... Reading state information... sga is already the newest version (0.10.15-7+b1). The following package was automatically installed and is no longer required: libbamtools2.5.1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m26.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', '-y', 'install', 'sga=0.10.15-7+b1'] 0m26.5s INFO: Running scripts post_install 0m26.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m26.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_install_exceptions'] 0m26.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m26.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m27.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', '-ac', '--ignore-obsolete'] 0m28.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', '-ac', '--ignore-obsolete'] 0m28.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m28.5s DUMP: 0.15.2 0m28.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m28.5s INFO: Running adequate version 0.15.2 now. 0m28.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sga'] 0m28.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'sga'] 0m28.5s INFO: Running scripts pre_remove 0m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m28.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m28.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_exceptions'] 0m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/pre_remove_exceptions'] 0m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m30.5s DUMP: install ok installed adduser adduser 3.128 install ok installed apt apt 2.5.2 install ok installed base-files base-files 12.2 install ok installed base-passwd base-passwd 3.6.0 install ok installed bash bash 5.2~rc2-2 install ok installed bsdutils bsdutils 1:2.38.1-1 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.3 install ok installed diffutils diffutils 1:3.8-1 install ok installed dpkg dpkg 1.21.9 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.9.0-3 install ok installed fontconfig fontconfig 2.13.1-4.4 install ok installed fontconfig-config fontconfig-config 2.13.1-4.4 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-2 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-1 install ok installed gpgv gpgv 2.2.35-3 install ok installed graphviz graphviz 2.42.2-7 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.64 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libann0 libann0 1.1.2+doc-7 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.2 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1+b1 install ok installed libbamtools2.5.1:amd64 libbamtools2.5.1 2.5.1+dfsg-10+b1 install ok installed libbamtools2.5.2:amd64 libbamtools2.5.2 2.5.2+dfsg-2 install ok installed libblkid1:amd64 libblkid1 2.38.1-1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b4 install ok installed libbsd0:amd64 libbsd0 0.11.6-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.34-7 install ok installed libc6:amd64 libc6 2.34-7 install ok installed libcairo2:amd64 libcairo2 1.16.0-6 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b1 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcdt5:amd64 libcdt5 2.42.2-7 install ok installed libcgraph6:amd64 libcgraph6 2.42.2-7 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.28-2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.85.0-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.264 install ok installed libdeflate0:amd64 libdeflate0 1.12-1 install ok installed libexpat1:amd64 libexpat1 2.4.8-1 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-4 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.4 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-3 install ok installed libfribidi0:amd64 libfribidi0 1.0.8-2.1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-1 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-2 install ok installed libgd3:amd64 libgd3 2.3.3-6 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-1+b1 install ok installed libgdbm6:amd64 libgdbm6 1.23-1+b1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.73.3-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1 install ok installed libgnutls30:amd64 libgnutls30 3.7.7-2 install ok installed libgomp1:amd64 libgomp1 12.2.0-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.45-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20-1 install ok installed libgts-0.7-5:amd64 libgts-0.7-5 0.7.6+darcs121130-5 install ok installed libgvc6 libgvc6 2.42.2-7 install ok installed libgvpr2:amd64 libgvpr2 2.42.2-7 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.7.4-1+b1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libhts3:amd64 libhts3 1.13+ds-2+b1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.2.2-1 install ok installed libice6:amd64 libice6 2:1.0.10-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.2-1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20-1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-1 install ok installed libkrb5-3:amd64 libkrb5-3 1.20-1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20-1 install ok installed liblab-gamut1:amd64 liblab-gamut1 2.42.2-7 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.12+dfsg-2+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-1 install ok installed libltdl7:amd64 libltdl7 2.4.7-4 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-2 install ok installed libncurses6:amd64 libncurses6 6.3+20220423-2 install ok installed libncursesw6:amd64 libncursesw6 6.3+20220423-2 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.49.0-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-2 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-2 install ok installed libpam-runtime libpam-runtime 1.5.2-2 install ok installed libpam0g:amd64 libpam0g 1.5.2-2 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.50.9+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.50.9+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.50.9+ds-1 install ok installed libpathplan4:amd64 libpathplan4 2.42.2-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-14 install ok installed libperl5.34:amd64 libperl5.34 5.34.0-5 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.40.0-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.37-5 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.10.6-1 install ok installed libpython3.10-minimal:amd64 libpython3.10-minimal 3.10.6-1 install ok installed libpython3.10-stdlib:amd64 libpython3.10-stdlib 3.10.6-1 install ok installed libreadline8:amd64 libreadline8 8.2~rc2-2 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-7 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-7 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b1 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b1 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsm6:amd64 libsm6 2:1.2.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.39.2-1 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.5-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-1 install ok installed libsystemd0:amd64 libsystemd0 251.4-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libthai-data libthai-data 0.1.29-1 install ok installed libthai0:amd64 libthai0 0.1.29-1 install ok installed libtiff5:amd64 libtiff5 4.4.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libudev1:amd64 libudev1 251.4-3 install ok installed libunistring2:amd64 libunistring2 1.0-1 install ok installed libuuid1:amd64 libuuid1 2.38.1-1 install ok installed libwebp7:amd64 libwebp7 1.2.2-2+b1 install ok installed libx11-6:amd64 libx11-6 2:1.8.1-2 install ok installed libx11-data libx11-data 2:1.8.1-2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxaw7:amd64 libxaw7 2:1.0.14-1 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 install ok installed libxmu6:amd64 libxmu6 2:1.1.3-3 install ok installed libxpm4:amd64 libxpm4 1:3.5.12-1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxt6:amd64 libxt6 1:1.2.1-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.11.1+dfsg1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 8.0.0 install ok installed mount mount 2.38.1-1 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed passwd passwd 1:4.11.1+dfsg1-2 install ok installed perl perl 5.34.0-5 install ok installed perl-base perl-base 5.34.0-5 install ok installed perl-modules-5.34 perl-modules-5.34 5.34.0-5 install ok installed python3 python3 3.10.6-1 install ok installed python3-minimal python3-minimal 3.10.6-1 install ok installed python3-pysam python3-pysam 0.17.0+ds-2+b2 install ok installed python3-ruffus python3-ruffus 2.8.4-4 install ok installed python3.10 python3.10 3.10.6-1 install ok installed python3.10-minimal python3.10-minimal 3.10.6-1 install ok installed readline-common readline-common 8.2~rc2-2 install ok installed samtools samtools 1.13-4 install ok installed sed sed 4.8-1 install ok installed sensible-utils sensible-utils 0.0.17 install ok installed sga sga 0.10.15-7+b1 install ok installed sysvinit-utils sysvinit-utils 3.04-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022c-1 install ok installed ucf ucf 3.0043 install ok installed util-linux util-linux 2.38.1-1 install ok installed util-linux-extra util-linux-extra 2.38.1-1 install ok installed x11-common x11-common 1:7.7+23 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-4.1 0m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'remove', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libann0', 'libbamtools2.5.1:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5:amd64', 'libcgraph6:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4:amd64', 'libperl5.34:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'media-types', 'perl', 'perl-modules-5.34', 'python3', 'python3-minimal', 'python3-pysam', 'python3-ruffus', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common', 'sga'] 0m31.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fontconfig fontconfig-config fonts-dejavu-core graphviz libann0 libbamtools2.5.1 libbamtools2.5.2 libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libcurl3-gnutls libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgd3 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhts3 libhtscodecs2 libice6 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.5-0 liblerc4 libltdl7 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libnsl2 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libperl5.34 libpixman-1-0 libpng16-16 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1 libssl3 libthai-data libthai0 libtiff5 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxmu6 libxpm4 libxrender1 libxt6 media-types perl perl-modules-5.34 python3 python3-minimal python3-pysam python3-ruffus python3.10 python3.10-minimal readline-common samtools sensible-utils sga ucf x11-common 0 upgraded, 0 newly installed, 102 to remove and 0 not upgraded. After this operation, 134 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 ... 10772 files and directories currently installed.) Removing sga (0.10.15-7+b1) ... Removing python3-ruffus (2.8.4-4) ... Removing graphviz (2.42.2-7) ... Removing libgvc6 (2.42.2-7) ... Removing libpangocairo-1.0-0:amd64 (1.50.9+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.50.9+ds-1) ... Removing libpango-1.0-0:amd64 (1.50.9+ds-1) ... Removing fontconfig (2.13.1-4.4) ... Removing libgd3:amd64 (2.3.3-6) ... Removing libcairo2:amd64 (1.16.0-6) ... Removing libfontconfig1:amd64 (2.13.1-4.4) ... Removing fontconfig-config (2.13.1-4.4) ... Removing fonts-dejavu-core (2.37-2) ... Removing libann0 (1.1.2+doc-7) ... Removing libbamtools2.5.1:amd64 (2.5.1+dfsg-10+b1) ... Removing libbamtools2.5.2:amd64 (2.5.2+dfsg-2) ... Removing libharfbuzz0b:amd64 (2.7.4-1+b1) ... Removing libfreetype6:amd64 (2.12.1+dfsg-3) ... Removing samtools (1.13-4) ... Removing libxaw7:amd64 (2:1.0.14-1) ... Removing libxmu6:amd64 (2:1.1.3-3) ... Removing libxt6:amd64 (1:1.2.1-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libsm6:amd64 (2:1.2.3-1) ... Removing libice6:amd64 (2:1.0.10-1) ... Removing libgvpr2:amd64 (2.42.2-7) ... Removing libcgraph6:amd64 (2.42.2-7) ... Removing libcdt5:amd64 (2.42.2-7) ... Removing libthai0:amd64 (0.1.29-1) ... Removing libdatrie1:amd64 (0.2.13-2) ... Removing libtiff5:amd64 (4.4.0-4) ... Removing python3-pysam (0.17.0+ds-2+b2) ... Removing python3 (3.10.6-1) ... Removing python3-minimal (3.10.6-1) ... Removing python3.10 (3.10.6-1) ... Removing python3.10-minimal (3.10.6-1) ... Removing libexpat1:amd64 (2.4.8-1) ... Removing libfribidi0:amd64 (1.0.8-2.1) ... Removing perl (5.34.0-5) ... Removing libperl5.34:amd64 (5.34.0-5) ... Removing libgdbm-compat4:amd64 (1.23-1+b1) ... Removing libgdbm6:amd64 (1.23-1+b1) ... Removing libgts-0.7-5:amd64 (0.7.6+darcs121130-5) ... Removing libglib2.0-0:amd64 (2.73.3-3) ... Removing libgomp1:amd64 (12.2.0-1) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libpython3-stdlib:amd64 (3.10.6-1) ... Removing libpython3.10-stdlib:amd64 (3.10.6-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.2-1) ... Removing liblab-gamut1:amd64 (2.42.2-7) ... Removing liblerc4:amd64 (4.0.0+ds-1) ... Removing libltdl7:amd64 (2.4.7-4) ... Removing libmpdec3:amd64 (2.5.1-2) ... Removing libncurses6:amd64 (6.3+20220423-2) ... Removing libncursesw6:amd64 (6.3+20220423-2) ... Removing libpathplan4:amd64 (2.42.2-7) ... Removing libpixman-1-0:amd64 (0.40.0-1) ... Removing libpng16-16:amd64 (1.6.37-5) ... Removing libpython3.10-minimal:amd64 (3.10.6-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2~rc2-2) ... Removing libsqlite3-0:amd64 (3.39.2-1) ... Removing libthai-data (0.1.29-1) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing libwebp7:amd64 (1.2.2-2+b1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxext6:amd64 (2:1.3.4-1) ... Removing libxpm4:amd64 (1:3.5.12-1) ... Removing media-types (8.0.0) ... Removing perl-modules-5.34 (5.34.0-5) ... Removing readline-common (8.2~rc2-2) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.17) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libhts3:amd64 (1.13+ds-2+b1) ... Removing libcurl3-gnutls:amd64 (7.85.0-1) ... Removing libbrotli1:amd64 (1.0.9-2+b4) ... Removing libx11-6:amd64 (2:1.8.1-2) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.6-1) ... Removing libdeflate0:amd64 (1.12-1) ... Removing libgssapi-krb5-2:amd64 (1.20-1) ... Removing libhtscodecs2:amd64 (1.2.2-1) ... Removing libkrb5-3:amd64 (1.20-1) ... Removing libk5crypto3:amd64 (1.20-1) ... Removing libkeyutils1:amd64 (1.6.3-1) ... Removing libkrb5support0:amd64 (1.20-1) ... Removing libldap-2.5-0:amd64 (2.5.12+dfsg-2+b1) ... Removing libmd0:amd64 (1.0.4-2) ... Removing libnghttp2-14:amd64 (1.49.0-1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-7) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-7) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing libssl3:amd64 (3.0.5-2) ... Removing libx11-data (2:1.8.1-2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Processing triggers for libc-bin (2.34-7) ... 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'remove', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libann0', 'libbamtools2.5.1:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5:amd64', 'libcgraph6:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4:amd64', 'libperl5.34:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'media-types', 'perl', 'perl-modules-5.34', 'python3', 'python3-minimal', 'python3-pysam', 'python3-ruffus', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common', 'sga'] 0m31.9s INFO: Running scripts post_remove 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_remove_exceptions'] 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_remove_exceptions'] 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libann0', 'libbamtools2.5.1:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5:amd64', 'libcgraph6:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4:amd64', 'libperl5.34:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'media-types', 'perl', 'perl-modules-5.34', 'python3', 'python3-minimal', 'python3-pysam', 'python3-ruffus', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common'] 0m32.2s DUMP: (Reading database ... 6640 files and directories currently installed.) Purging configuration files for fontconfig (2.13.1-4.4) ... Purging configuration files for fontconfig-config (2.13.1-4.4) ... Purging configuration files for fonts-dejavu-core (2.37-2) ... dpkg: warning: while removing fonts-dejavu-core, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed Purging configuration files for graphviz (2.42.2-7) ... dpkg: warning: ignoring request to remove libann0 which isn't installed dpkg: warning: ignoring request to remove libbamtools2.5.1 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 libbsd0 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcdt5 which isn't installed dpkg: warning: ignoring request to remove libcgraph6 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgd3 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 Purging configuration files for libglib2.0-0:amd64 (2.73.3-3) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20-1) ... dpkg: warning: ignoring request to remove libgts-0.7-5 which isn't installed Purging configuration files for libgvc6 (2.42.2-7) ... dpkg: warning: ignoring request to remove libgvpr2 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblab-gamut1 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpathplan4 which isn't installed dpkg: warning: ignoring request to remove libperl5.34 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 libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.10-minimal:amd64 (3.10.6-1) ... dpkg: warning: ignoring request to remove libpython3.10-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed Purging configuration files for libtirpc-common (1.3.3+ds-1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxaw7 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 libxmu6 which isn't installed dpkg: warning: ignoring request to remove libxpm4 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxt6 which isn't installed Purging configuration files for media-types (8.0.0) ... Purging configuration files for perl (5.34.0-5) ... dpkg: warning: ignoring request to remove perl-modules-5.34 which isn't installed Purging configuration files for python3 (3.10.6-1) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-ruffus which isn't installed dpkg: warning: ignoring request to remove python3.10 which isn't installed Purging configuration files for python3.10-minimal (3.10.6-1) ... Purging configuration files for readline-common (8.2~rc2-2) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043) ... Purging configuration files for x11-common (1:7.7+23) ... 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'graphviz', 'libann0', 'libbamtools2.5.1:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdt5:amd64', 'libcgraph6:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgd3:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgts-0.7-5:amd64', 'libgvc6', 'libgvpr2:amd64', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblab-gamut1:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpathplan4:amd64', 'libperl5.34:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxmu6:amd64', 'libxpm4:amd64', 'libxrender1:amd64', 'libxt6:amd64', 'media-types', 'perl', 'perl-modules-5.34', 'python3', 'python3-minimal', 'python3-pysam', 'python3-ruffus', 'python3.10', 'python3.10-minimal', 'readline-common', 'samtools', 'sensible-utils', 'ucf', 'x11-common'] 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', 'sga'] 0m32.2s DUMP: dpkg: warning: ignoring request to remove sga which isn't installed 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', 'sga'] 0m32.2s INFO: Running scripts post_purge 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_purge_exceptions'] 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_purge_exceptions'] 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', '--pending'] 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--purge', '--pending'] 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--remove', '--pending'] 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg', '--remove', '--pending'] 0m32.2s INFO: Running scripts post_test 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_test_exceptions'] 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'tmp/scripts/post_test_exceptions'] 0m32.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m32.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-divert', '--list'] 0m32.5s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'dpkg-divert', '--list'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'clean'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw', 'apt-get', 'clean'] 0m32.5s DEBUG: Recording chroot state 0m32.9s INFO: Warning: Package purging left files on system: /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 0m33.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/shm'] 0m33.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/shm'] 0m33.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/console'] 0m33.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/console'] 0m33.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/ptmx'] 0m33.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/ptmx'] 0m33.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts'] 0m33.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/dev/pts'] 0m33.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/proc'] 0m33.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw/proc'] 0m33.3s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m33.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmphf5pnnlw'] 0m33.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmphf5pnnlw 0m33.3s INFO: PASS: Upgrading between Debian distributions. 0m33.3s INFO: PASS: All tests. 0m33.3s INFO: piuparts run ends. ret=0 End: 2022-09-03 03:27:27 GMT