Start: 2024-12-22 04:03:12 GMT [testing] Package: reapr Version: 1.0.18+dfsg-6 Installed-Size: 1069 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1), libtabixpp0t64 (>= 1.0.0), samtools, bamtools, smalt, r-base, snpomatic, tabix, libfile-copy-link-perl Description: universal tool for genome assembly evaluation Homepage: https://www.sanger.ac.uk/science/tools/reapr Description-md5: 293360a33ad6e6e8a412e05853784134 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/r/reapr/reapr_1.0.18+dfsg-6_amd64.deb Size: 207196 MD5sum: 4d11d28b7a57b2d86ec57ae6223e5179 SHA256: 1833bc2e965f13b3608e27ce508d83558c79a686f76fabf2ba45b011c93dfe87 [sid] Package: reapr Version: 1.0.18+dfsg-7 Installed-Size: 1073 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.38), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1), libtabixpp0t64 (>= 1.0.0), samtools, bamtools, smalt, r-base, snpomatic, tabix, libfile-copy-link-perl Description: universal tool for genome assembly evaluation Homepage: https://www.sanger.ac.uk/science/tools/reapr Description-md5: 293360a33ad6e6e8a412e05853784134 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/r/reapr/reapr_1.0.18+dfsg-7_amd64.deb Size: 214896 MD5sum: 1d7861c56a8315e7a814750fca4bcd44 SHA256: 640f977f7fed317fcc281e81355a430dc0f4bf687f5f8eb0f5f4aba343e7b7cc Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt reapr=1.0.18+dfsg-7 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt reapr=1.0.18+dfsg-7 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpt2o5pth7 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpt2o5pth7 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/proc'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpt2o5pth7/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'update'] 0m2.8s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9388 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6297 kB] Fetched 15.9 MB in 1s (11.9 MB/s) Reading package lists... 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'update'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-yf', 'dist-upgrade'] 0m3.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-yf', 'dist-upgrade'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.1s DUMP: a4b42b151e5655839aafc164395ba577 - 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.1s INFO: Running scripts post_setup 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_dummy_users'] 0m4.8s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_dummy_users'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_forbid_home'] 0m4.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_forbid_home'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_minimize'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_minimize'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_zz_backports'] 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_setup_zz_backports'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.9s DUMP: install ok installed apt apt 2.9.17 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.2-12 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.2 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.17 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblkid1:amd64 libblkid1 2.40.2-12 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-12 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-5 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-12 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257-2 install ok installed libunistring5:amd64 libunistring5 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-12 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-12 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-12 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.9s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m4.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m5.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m5.4s INFO: Running scripts is_testable 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s INFO: Running scripts pre_test 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_test_root_password'] 0m5.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_test_root_password'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'show', '--no-all-versions', 'reapr'] 0m5.7s DUMP: Package: reapr Version: 1.0.18+dfsg-6 Installed-Size: 1069 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1), libtabixpp0t64 (>= 1.0.0), samtools, bamtools, smalt, r-base, snpomatic, tabix, libfile-copy-link-perl Description-en: universal tool for genome assembly evaluation REAPR is a tool that evaluates the accuracy of a genome assembly using mapped paired end reads, without the use of a reference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an assembly for manual inspection. It reports mis-assemblies and other warnings, and produces a new broken assembly based on the error calls. . The software requires as input an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information such as the fragment coverage and insert size distribution is analysed to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a short insert Illumina library is also available, REAPR can combine this with the large insert library in order to score each base of the assembly. Description-md5: 293360a33ad6e6e8a412e05853784134 Homepage: https://www.sanger.ac.uk/science/tools/reapr Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/r/reapr/reapr_1.0.18+dfsg-6_amd64.deb Size: 207196 MD5sum: 4d11d28b7a57b2d86ec57ae6223e5179 SHA256: 1833bc2e965f13b3608e27ce508d83558c79a686f76fabf2ba45b011c93dfe87 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'show', '--no-all-versions', 'reapr'] 0m5.7s INFO: apt-cache knows about the following packages: reapr 0m5.7s INFO: Running scripts pre_install 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m5.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m5.9s DUMP: reapr: Installed: (none) Candidate: 1.0.18+dfsg-6 Version table: 1.0.18+dfsg-6 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr'] 0m19.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bamtools ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libatomic1 libbambamc0 libbamtools2.5.2 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfile-copy-link-perl libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libice6 libicu72 libjbig0 libjpeg62-turbo libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libtabixpp0t64 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 openssl perl perl-modules-5.40 procps r-base r-base-core r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-recommended readline-common samtools sensible-utils smalt snpomatic tabix ucf unzip x11-common xdg-utils zip Suggested packages: gdbm-l10n low-memory-monitor krb5-doc krb5-user tcl8.6 tk8.6 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html readline-doc cwltool Recommended packages: libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules netbase psmisc linux-sysctl-defaults r-base-html r-doc-html r-base-dev libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: bamtools ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libatomic1 libbambamc0 libbamtools2.5.2 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfile-copy-link-perl libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libice6 libicu72 libjbig0 libjpeg62-turbo libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libtabixpp0t64 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 openssl perl perl-modules-5.40 procps r-base r-base-core r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-recommended readline-common reapr samtools sensible-utils smalt snpomatic tabix ucf unzip x11-common xdg-utils zip 0 upgraded, 121 newly installed, 0 to remove and 0 not upgraded. Need to get 90.9 MB of archives. After this operation, 235 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.40 all 5.40.0-8 [3015 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libperl5.40 amd64 5.40.0-8 [4320 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.40.0-8 [267 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0045 [45.2 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-6+b1 [161 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 bamtools amd64 2.5.2+dfsg-6+b1 [207 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-3 [280 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:27 http://deb.debian.org/debian trixie/main amd64 libbambamc0 amd64 0.0.50-6+b2 [38.2 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-4 [152 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b3 [27.8 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:43 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.9.1-1 [119 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.9.1-1 [18.5 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.11.1-1 [360 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.11.1-1 [351 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libfile-copy-link-perl all 0.140-5 [13.2 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.4-1 [1501 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.1.0-1 [478 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.55.0+ds-3 [225 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.55.0+ds-3 [54.6 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.55.0+ds-3 [35.4 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b2 [12.8 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b2 [9236 B] Get:83 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libtabixpp0t64 amd64 1.1.2-2.1+b1 [10.3 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b3 [54.6 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b2 [17.0 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b1 [188 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.2-1 [28.3 MB] Get:100 http://deb.debian.org/debian trixie/main amd64 r-cran-boot all 1.3-31-1 [639 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 r-cran-cluster amd64 2.1.8-1 [584 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 r-cran-foreign amd64 0.8.87-1 [253 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 r-cran-mass amd64 7.3-61-1 [1112 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 r-cran-kernsmooth amd64 2.23-24-1 [92.7 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 r-cran-nlme amd64 3.1.166-1 [2330 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-1-1 [4138 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 r-cran-survival amd64 3.7-0-1 [6305 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 r-cran-rpart amd64 4.1.23-1 [685 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 r-cran-class amd64 7.3-22-2 [87.3 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 r-cran-nnet amd64 7.3-19-2 [111 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 r-cran-spatial amd64 7.3-17-1 [128 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 r-recommended all 4.4.2-1 [2572 B] Get:116 http://deb.debian.org/debian trixie/main amd64 r-base all 4.4.2-1 [14.7 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 samtools amd64 1.20-3 [653 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 smalt amd64 0.7.6-13 [115 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 snpomatic amd64 1.0-7 [85.6 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 tabix amd64 1.20+ds-2 [486 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 reapr amd64 1.0.18+dfsg-6 [207 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 90.9 MB in 1s (162 MB/s) Selecting previously unselected package libncursesw6: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 ... 5135 files and directories currently installed.) Preparing to unpack .../000-libncursesw6_6.5-2+b1_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2+b1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package readline-common. Preparing to unpack .../003-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package perl-modules-5.40. Preparing to unpack .../007-perl-modules-5.40_5.40.0-8_all.deb ... Unpacking perl-modules-5.40 (5.40.0-8) ... Selecting previously unselected package libgdbm6t64:amd64. Preparing to unpack .../008-libgdbm6t64_1.24-2_amd64.deb ... Unpacking libgdbm6t64:amd64 (1.24-2) ... Selecting previously unselected package libgdbm-compat4t64:amd64. Preparing to unpack .../009-libgdbm-compat4t64_1.24-2_amd64.deb ... Unpacking libgdbm-compat4t64:amd64 (1.24-2) ... Selecting previously unselected package libperl5.40:amd64. Preparing to unpack .../010-libperl5.40_5.40.0-8_amd64.deb ... Unpacking libperl5.40:amd64 (5.40.0-8) ... Selecting previously unselected package perl. Preparing to unpack .../011-perl_5.40.0-8_amd64.deb ... Unpacking perl (5.40.0-8) ... Selecting previously unselected package ucf. Preparing to unpack .../012-ucf_3.0045_all.deb ... Moving old data out of the way Unpacking ucf (3.0045) ... Selecting previously unselected package libbamtools2.5.2:amd64. Preparing to unpack .../013-libbamtools2.5.2_2.5.2+dfsg-6+b1_amd64.deb ... Unpacking libbamtools2.5.2:amd64 (2.5.2+dfsg-6+b1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../014-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package bamtools. Preparing to unpack .../015-bamtools_2.5.2+dfsg-6+b1_amd64.deb ... Unpacking bamtools (2.5.2+dfsg-6+b1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../016-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../017-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../018-libpng16-16t64_1.6.44-3_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.44-3) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../019-libfreetype6_2.13.3+dfsg-1_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../020-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../021-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../022-fontconfig-config_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1+b1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../023-libfontconfig1_2.15.0-1.1+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1+b1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../024-fontconfig_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1+b1) ... Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../025-libatomic1_14.2.0-8_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-8) ... Selecting previously unselected package libbambamc0:amd64. Preparing to unpack .../026-libbambamc0_0.0.50-6+b2_amd64.deb ... Unpacking libbambamc0:amd64 (0.0.50-6+b2) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../027-libblas3_3.12.0-4_amd64.deb ... Unpacking libblas3:amd64 (3.12.0-4) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../028-libpixman-1-0_0.44.0-3_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.44.0-3) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../029-libxau6_1%3a1.0.11-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../030-libxdmcp6_1%3a1.1.5-1_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../031-libxcb1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../032-libx11-data_2%3a1.8.10-2_all.deb ... Unpacking libx11-data (2:1.8.10-2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../033-libx11-6_2%3a1.8.10-2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.10-2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../034-libxcb-render0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../035-libxcb-shm0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../036-libxext6_2%3a1.3.4-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../037-libxrender1_1%3a0.9.10-1.1+b3_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1+b3) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../038-libcairo2_1.18.2-2_amd64.deb ... Unpacking libcairo2:amd64 (1.18.2-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../039-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../040-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../041-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../042-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../043-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../044-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../045-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../046-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../047-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../048-libnghttp3-9_1.6.0-2_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.6.0-2) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../049-libngtcp2-16_1.9.1-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.9.1-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../050-libngtcp2-crypto-gnutls8_1.9.1-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../051-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../052-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../053-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../054-libcurl3t64-gnutls_8.11.1-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../055-libcurl4t64_8.11.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.11.1-1) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../056-libdatrie1_0.2.13-3+b1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.13-3+b1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../057-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libfile-copy-link-perl. Preparing to unpack .../058-libfile-copy-link-perl_0.140-5_all.deb ... Unpacking libfile-copy-link-perl (0.140-5) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../059-libfribidi0_1.0.16-1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.16-1) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../060-libgfortran5_14.2.0-8_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-8) ... Selecting previously unselected package libglib2.0-0t64:amd64. Preparing to unpack .../061-libglib2.0-0t64_2.82.4-1_amd64.deb ... Unpacking libglib2.0-0t64:amd64 (2.82.4-1) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../062-libgomp1_14.2.0-8_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-8) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../063-libgraphite2-3_1.3.14-2+b1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-2+b1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../064-libharfbuzz0b_10.1.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (10.1.0-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../065-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../066-libhts3t64_1.20+ds-2_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-2) ... Selecting previously unselected package x11-common. Preparing to unpack .../067-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../068-libice6_2%3a1.1.1-1_amd64.deb ... Unpacking libice6:amd64 (2:1.1.1-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../069-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../070-libjbig0_2.1-6.1+b2_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1+b2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../071-libjpeg62-turbo_1%3a2.1.5-3+b1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../072-liblapack3_3.12.0-4_amd64.deb ... Unpacking liblapack3:amd64 (3.12.0-4) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../073-liblerc4_4.0.0+ds-5_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-5) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../074-libncurses6_6.5-2+b1_amd64.deb ... Unpacking libncurses6:amd64 (6.5-2+b1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../075-libthai-data_0.1.29-2_all.deb ... Unpacking libthai-data (0.1.29-2) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../076-libthai0_0.1.29-2+b1_amd64.deb ... Unpacking libthai0:amd64 (0.1.29-2+b1) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../077-libpango-1.0-0_1.55.0+ds-3_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.55.0+ds-3) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../078-libpangoft2-1.0-0_1.55.0+ds-3_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../079-libpangocairo-1.0-0_1.55.0+ds-3_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../080-libpaper1_1.1.29+b2_amd64.deb ... Unpacking libpaper1:amd64 (1.1.29+b2) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../081-libpaper-utils_1.1.29+b2_amd64.deb ... Unpacking libpaper-utils (1.1.29+b2) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../082-libreadline8t64_8.2-6_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-6) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../083-libsharpyuv0_1.4.0-0.1+b1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../084-libsm6_2%3a1.2.4-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.4-1) ... Selecting previously unselected package libtabixpp0t64:amd64. Preparing to unpack .../085-libtabixpp0t64_1.1.2-2.1+b1_amd64.deb ... Unpacking libtabixpp0t64:amd64 (1.1.2-2.1+b1) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../086-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../087-libwebp7_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebp7:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../088-libtiff6_4.5.1+git230720-5_amd64.deb ... Unpacking libtiff6:amd64 (4.5.1+git230720-5) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../089-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../090-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../091-libxft2_2.3.6-1+b3_amd64.deb ... Unpacking libxft2:amd64 (2.3.6-1+b3) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../092-libxss1_1%3a1.2.3-1+b2_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1+b2) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../093-libtk8.6_8.6.15-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.15-1) ... Selecting previously unselected package libxt6t64:amd64. Preparing to unpack .../094-libxt6t64_1%3a1.2.1-1.2+b1_amd64.deb ... Unpacking libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Selecting previously unselected package zip. Preparing to unpack .../095-zip_3.0-14_amd64.deb ... Unpacking zip (3.0-14) ... Selecting previously unselected package unzip. Preparing to unpack .../096-unzip_6.0-28_amd64.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../097-xdg-utils_1.2.1-2_all.deb ... Unpacking xdg-utils (1.2.1-2) ... Selecting previously unselected package r-base-core. Preparing to unpack .../098-r-base-core_4.4.2-1_amd64.deb ... Unpacking r-base-core (4.4.2-1) ... Selecting previously unselected package r-cran-boot. Preparing to unpack .../099-r-cran-boot_1.3-31-1_all.deb ... Unpacking r-cran-boot (1.3-31-1) ... Selecting previously unselected package r-cran-cluster. Preparing to unpack .../100-r-cran-cluster_2.1.8-1_amd64.deb ... Unpacking r-cran-cluster (2.1.8-1) ... Selecting previously unselected package r-cran-foreign. Preparing to unpack .../101-r-cran-foreign_0.8.87-1_amd64.deb ... Unpacking r-cran-foreign (0.8.87-1) ... Selecting previously unselected package r-cran-mass. Preparing to unpack .../102-r-cran-mass_7.3-61-1_amd64.deb ... Unpacking r-cran-mass (7.3-61-1) ... Selecting previously unselected package r-cran-kernsmooth. Preparing to unpack .../103-r-cran-kernsmooth_2.23-24-1_amd64.deb ... Unpacking r-cran-kernsmooth (2.23-24-1) ... Selecting previously unselected package r-cran-lattice. Preparing to unpack .../104-r-cran-lattice_0.22-6-1_amd64.deb ... Unpacking r-cran-lattice (0.22-6-1) ... Selecting previously unselected package r-cran-nlme. Preparing to unpack .../105-r-cran-nlme_3.1.166-1_amd64.deb ... Unpacking r-cran-nlme (3.1.166-1) ... Selecting previously unselected package r-cran-matrix. Preparing to unpack .../106-r-cran-matrix_1.7-1-1_amd64.deb ... Unpacking r-cran-matrix (1.7-1-1) ... Selecting previously unselected package r-cran-mgcv. Preparing to unpack .../107-r-cran-mgcv_1.9-1-1_amd64.deb ... Unpacking r-cran-mgcv (1.9-1-1) ... Selecting previously unselected package r-cran-survival. Preparing to unpack .../108-r-cran-survival_3.7-0-1_amd64.deb ... Unpacking r-cran-survival (3.7-0-1) ... Selecting previously unselected package r-cran-rpart. Preparing to unpack .../109-r-cran-rpart_4.1.23-1_amd64.deb ... Unpacking r-cran-rpart (4.1.23-1) ... Selecting previously unselected package r-cran-class. Preparing to unpack .../110-r-cran-class_7.3-22-2_amd64.deb ... Unpacking r-cran-class (7.3-22-2) ... Selecting previously unselected package r-cran-nnet. Preparing to unpack .../111-r-cran-nnet_7.3-19-2_amd64.deb ... Unpacking r-cran-nnet (7.3-19-2) ... Selecting previously unselected package r-cran-spatial. Preparing to unpack .../112-r-cran-spatial_7.3-17-1_amd64.deb ... Unpacking r-cran-spatial (7.3-17-1) ... Selecting previously unselected package r-cran-codetools. Preparing to unpack .../113-r-cran-codetools_0.2-20-1_all.deb ... Unpacking r-cran-codetools (0.2-20-1) ... Selecting previously unselected package r-recommended. Preparing to unpack .../114-r-recommended_4.4.2-1_all.deb ... Unpacking r-recommended (4.4.2-1) ... Selecting previously unselected package r-base. Preparing to unpack .../115-r-base_4.4.2-1_all.deb ... Unpacking r-base (4.4.2-1) ... Selecting previously unselected package samtools. Preparing to unpack .../116-samtools_1.20-3_amd64.deb ... Unpacking samtools (1.20-3) ... Selecting previously unselected package smalt. Preparing to unpack .../117-smalt_0.7.6-13_amd64.deb ... Unpacking smalt (0.7.6-13) ... Selecting previously unselected package snpomatic. Preparing to unpack .../118-snpomatic_1.0-7_amd64.deb ... Unpacking snpomatic (1.0-7) ... Selecting previously unselected package tabix. Preparing to unpack .../119-tabix_1.20+ds-2_amd64.deb ... Unpacking tabix (1.20+ds-2) ... Selecting previously unselected package reapr. Preparing to unpack .../120-reapr_1.0.18+dfsg-6_amd64.deb ... Unpacking reapr (1.0.18+dfsg-6) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up libdatrie1:amd64 (0.2.13-3+b1) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up unzip (6.0-28) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libgomp1:amd64 (14.2.0-8) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up zip (3.0-14) ... Setting up libblas3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libncurses6:amd64 (6.5-2+b1) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up libbambamc0:amd64 (0.0.50-6+b2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-3) ... Setting up libatomic1:amd64 (14.2.0-8) ... Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libbamtools2.5.2:amd64 (2.5.2+dfsg-6+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libnghttp3-9:amd64 (1.6.0-2) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up perl-modules-5.40 (5.40.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up bamtools (2.5.2+dfsg-6+b1) ... Setting up snpomatic (1.0-7) ... Setting up procps (2:4.0.4-6) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up libthai-data (0.1.29-2) ... Setting up libngtcp2-16:amd64 (1.9.1-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up openssl (3.3.2-2) ... Setting up tabix (1.20+ds-2) ... Setting up readline-common (8.2-6) ... Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Setting up smalt (0.7.6-13) ... Setting up libice6:amd64 (2:1.1.1-1) ... Setting up liblapack3:amd64 (3.12.0-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxrender1:amd64 (1:0.9.10-1.1+b3) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libperl5.40:amd64 (5.40.0-8) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up perl (5.40.0-8) ... Setting up libglib2.0-0t64:amd64 (2.82.4-1) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up ucf (3.0045) ... Setting up libreadline8t64:amd64 (8.2-6) ... Setting up libharfbuzz0b:amd64 (10.1.0-1) ... Setting up libxss1:amd64 (1:1.2.3-1+b2) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libsm6:amd64 (2:1.2.4-1) ... Setting up libpaper1:amd64 (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b3) ... Setting up libfile-copy-link-perl (0.140-5) ... Setting up libcurl4t64:amd64 (8.11.1-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libtk8.6:amd64 (8.6.15-1) ... Setting up libpango-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libcurl3t64-gnutls:amd64 (8.11.1-1) ... Setting up libpaper-utils (1.1.29+b2) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Setting up libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Setting up samtools (1.20-3) ... Setting up r-base-core (4.4.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-lattice (0.22-6-1) ... Setting up r-cran-nlme (3.1.166-1) ... Setting up r-cran-cluster (2.1.8-1) ... Setting up libtabixpp0t64:amd64 (1.1.2-2.1+b1) ... Setting up r-cran-nnet (7.3-19-2) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-cran-boot (1.3-31-1) ... Setting up r-cran-spatial (7.3-17-1) ... Setting up r-cran-mass (7.3-61-1) ... Setting up r-cran-foreign (0.8.87-1) ... Setting up r-cran-matrix (1.7-1-1) ... Setting up r-cran-kernsmooth (2.23-24-1) ... Setting up r-cran-mgcv (1.9-1-1) ... Setting up r-cran-class (7.3-22-2) ... Setting up r-cran-survival (3.7-0-1) ... Setting up r-cran-rpart (4.1.23-1) ... Setting up r-recommended (4.4.2-1) ... Setting up r-base (4.4.2-1) ... Setting up reapr (1.0.18+dfsg-6) ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr'] 0m19.9s INFO: Running scripts post_install 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m19.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m20.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m20.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpt2o5pth7 to sid 0m20.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m20.9s INFO: Running scripts pre_distupgrade 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_exceptions'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_exceptions'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m20.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m20.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'update'] 0m25.1s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.1 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7363 kB] Fetched 17.6 MB in 3s (5272 kB/s) Reading package lists... 0m25.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'update'] 0m25.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-yf', 'dist-upgrade'] 0m28.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libpaper1 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libpaper2 The following packages will be upgraded: apt gcc-14-base libapt-pkg6.0t64 libatomic1 libgcc-s1 libgfortran5 libgomp1 libpaper-utils libstdc++6 libsystemd0 libudev1 reapr tar ucf 14 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 5999 kB of archives. After this operation, 108 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-3.1 [815 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-11 [9284 B] Get:3 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-11 [137 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-11 [836 kB] Get:5 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-11 [48.0 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-11 [72.7 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-11 [713 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 257.1-3 [449 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 257.1-3 [148 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.18 [1113 kB] Get:11 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.18 [1370 kB] Get:12 http://deb.debian.org/debian sid/main amd64 ucf all 3.0046 [41.1 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libpaper2 amd64 2.2.5-0.3 [16.3 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 2.2.5-0.3 [16.1 kB] Get:15 http://deb.debian.org/debian sid/main amd64 reapr amd64 1.0.18+dfsg-7 [215 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 5999 kB in 0s (77.0 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 ... 12100 files and directories currently installed.) Preparing to unpack .../tar_1.35+dfsg-3.1_amd64.deb ... Unpacking tar (1.35+dfsg-3.1) over (1.35+dfsg-3) ... Setting up tar (1.35+dfsg-3.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12100 files and directories currently installed.) Preparing to unpack .../libatomic1_14.2.0-11_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-11) over (14.2.0-8) ... Preparing to unpack .../libgomp1_14.2.0-11_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-11) over (14.2.0-8) ... Preparing to unpack .../libgfortran5_14.2.0-11_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-11) over (14.2.0-8) ... Preparing to unpack .../gcc-14-base_14.2.0-11_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up gcc-14-base:amd64 (14.2.0-11) ... (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 ... 12100 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-11_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up libgcc-s1:amd64 (14.2.0-11) ... (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 ... 12100 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-11_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-11) over (14.2.0-8) ... Setting up libstdc++6:amd64 (14.2.0-11) ... (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 ... 12100 files and directories currently installed.) Preparing to unpack .../libsystemd0_257.1-3_amd64.deb ... Unpacking libsystemd0:amd64 (257.1-3) over (257-2) ... Setting up libsystemd0:amd64 (257.1-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12100 files and directories currently installed.) Preparing to unpack .../libudev1_257.1-3_amd64.deb ... Unpacking libudev1:amd64 (257.1-3) over (257-2) ... Setting up libudev1:amd64 (257.1-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12100 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.18_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.18) over (2.9.17) ... Setting up libapt-pkg6.0t64:amd64 (2.9.18) ... (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 ... 12100 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.18_amd64.deb ... Unpacking apt (2.9.18) over (2.9.17) ... Setting up apt (2.9.18) ... (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 ... 12100 files and directories currently installed.) Preparing to unpack .../archives/ucf_3.0046_all.deb ... Unpacking ucf (3.0046) over (3.0045) ... Selecting previously unselected package libpaper2:amd64. Preparing to unpack .../libpaper2_2.2.5-0.3_amd64.deb ... Unpacking libpaper2:amd64 (2.2.5-0.3) ... Preparing to unpack .../libpaper-utils_2.2.5-0.3_amd64.deb ... Unpacking libpaper-utils (2.2.5-0.3) over (1.1.29+b2) ... Preparing to unpack .../reapr_1.0.18+dfsg-7_amd64.deb ... Unpacking reapr (1.0.18+dfsg-7) over (1.0.18+dfsg-6) ... Setting up reapr (1.0.18+dfsg-7) ... Setting up libgomp1:amd64 (14.2.0-11) ... Setting up libatomic1:amd64 (14.2.0-11) ... Setting up ucf (3.0046) ... Setting up libgfortran5:amd64 (14.2.0-11) ... Setting up libpaper2:amd64 (2.2.5-0.3) ... Setting up libpaper-utils (2.2.5-0.3) ... Processing triggers for libc-bin (2.40-4) ... 0m28.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-yf', 'dist-upgrade'] 0m28.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m29.2s DUMP: 677b7aae97e95502f993001c008f0a7f - 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'show', '--no-all-versions', 'reapr'] 0m29.4s DUMP: Package: reapr Version: 1.0.18+dfsg-7 Installed-Size: 1073 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.38), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1), libtabixpp0t64 (>= 1.0.0), samtools, bamtools, smalt, r-base, snpomatic, tabix, libfile-copy-link-perl Description-en: universal tool for genome assembly evaluation REAPR is a tool that evaluates the accuracy of a genome assembly using mapped paired end reads, without the use of a reference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an assembly for manual inspection. It reports mis-assemblies and other warnings, and produces a new broken assembly based on the error calls. . The software requires as input an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information such as the fragment coverage and insert size distribution is analysed to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a short insert Illumina library is also available, REAPR can combine this with the large insert library in order to score each base of the assembly. Description-md5: 293360a33ad6e6e8a412e05853784134 Homepage: https://www.sanger.ac.uk/science/tools/reapr Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, works-with::biological-sequence Section: science Priority: optional Filename: pool/main/r/reapr/reapr_1.0.18+dfsg-7_amd64.deb Size: 214896 MD5sum: 1d7861c56a8315e7a814750fca4bcd44 SHA256: 640f977f7fed317fcc281e81355a430dc0f4bf687f5f8eb0f5f4aba343e7b7cc 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'show', '--no-all-versions', 'reapr'] 0m29.4s INFO: apt-cache knows about the following packages: reapr 0m29.4s INFO: Running scripts pre_install 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m29.5s 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: 0m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m29.5s DUMP: reapr: Installed: 1.0.18+dfsg-7 Candidate: 1.0.18+dfsg-7 Version table: *** 1.0.18+dfsg-7 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr'] 0m30.2s DUMP: Reading package lists... Building dependency tree... Reading state information... reapr is already the newest version (1.0.18+dfsg-7). The following package was automatically installed and is no longer required: libpaper1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m30.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr'] 0m30.2s INFO: Running scripts post_install 0m30.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m30.3s INFO: Running scripts post_distupgrade 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_exceptions'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_exceptions'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_zz_backports'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_distupgrade_zz_backports'] 0m30.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m31.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m31.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m31.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m31.5s INFO: Running scripts pre_install 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_database-server'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_exceptions'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_extras'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m31.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m31.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy'] 0m31.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m31.7s DUMP: reapr: Installed: 1.0.18+dfsg-7 Candidate: 1.0.18+dfsg-7 Version table: *** 1.0.18+dfsg-7 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m31.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-cache', 'policy', 'reapr'] 0m31.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr=1.0.18+dfsg-7'] 0m32.2s DUMP: Reading package lists... Building dependency tree... Reading state information... reapr is already the newest version (1.0.18+dfsg-7). The following package was automatically installed and is no longer required: libpaper1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', '-y', 'install', 'reapr=1.0.18+dfsg-7'] 0m32.2s INFO: Running scripts post_install 0m32.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m32.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_install_exceptions'] 0m32.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m33.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m34.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', '-ac', '--ignore-obsolete'] 0m36.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', '-ac', '--ignore-obsolete'] 0m36.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m36.4s DUMP: 0.15.6 0m36.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m36.4s INFO: Running adequate version 0.15.6 now. 0m36.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'reapr'] 0m36.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'reapr'] 0m36.5s INFO: Running scripts pre_remove 0m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m36.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m36.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_exceptions'] 0m39.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/pre_remove_exceptions'] 0m39.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m39.5s DUMP: install ok installed apt apt 2.9.18 install ok installed bamtools bamtools 2.5.2+dfsg-6+b1 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.2-12 install ok installed ca-certificates ca-certificates 20240203 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig fontconfig 2.15.0-1.1+b1 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1+b1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-11 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.2 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.18 install ok installed libatomic1:amd64 libatomic1 14.2.0-11 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libbambamc0:amd64 libbambamc0 0.0.50-6+b2 install ok installed libbamtools2.5.2:amd64 libbamtools2.5.2 2.5.2+dfsg-6+b1 install ok installed libblas3:amd64 libblas3 3.12.0-4 install ok installed libblkid1:amd64 libblkid1 2.40.2-12 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b6 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.11.1-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.11.1-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3+b1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libdeflate0:amd64 libdeflate0 1.22-1 install ok installed libexpat1:amd64 libexpat1 2.6.4-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfile-copy-link-perl libfile-copy-link-perl 0.140-5 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1+b1 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.16-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-11 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-11 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.82.4-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-11 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2+b1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 10.1.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libhts3t64:amd64 libhts3t64 1.20+ds-2 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-1 install ok installed libice6:amd64 libice6 2:1.1.1-1 install ok installed libicu72:amd64 libicu72 72.1-5+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed libjsoncpp26:amd64 libjsoncpp26 1.9.6-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-4 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblapack3:amd64 liblapack3 3.12.0-4 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3+b1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-12 install ok installed libncurses6:amd64 libncurses6 6.5-2+b1 install ok installed libncursesw6:amd64 libncursesw6 6.5-2+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.6.0-2 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.9.1-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.9.1-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.55.0+ds-3 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.55.0+ds-3 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.55.0+ds-3 install ok installed libpaper-utils libpaper-utils 2.2.5-0.3 install ok installed libpaper1:amd64 libpaper1 1.1.29+b2 install ok installed libpaper2:amd64 libpaper2 2.2.5-0.3 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-5 install ok installed libperl5.40:amd64 libperl5.40 5.40.0-8 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.44.0-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.44-3 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-6 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-6 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b5 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1+b1 install ok installed libsm6:amd64 libsm6 2:1.2.4-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-12 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-11 install ok installed libsystemd0:amd64 libsystemd0 257.1-3 install ok installed libtabixpp0t64:amd64 libtabixpp0t64 1.1.2-2.1+b1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.15+dfsg-2 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2+b1 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3+b1 install ok installed libtk8.6:amd64 libtk8.6 8.6.15-1 install ok installed libudev1:amd64 libudev1 257.1-3 install ok installed libunistring5:amd64 libunistring5 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-12 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1+b1 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-2 install ok installed libx11-data libx11-data 2:1.8.10-2 install ok installed libxau6:amd64 libxau6 1:1.0.11-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b1 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b2 install ok installed libxft2:amd64 libxft2 2.3.6-1+b3 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b3 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b2 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.2+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-12 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-12 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl openssl 3.3.2-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl perl 5.40.0-8 install ok installed perl-base perl-base 5.40.0-8 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.0-8 install ok installed procps procps 2:4.0.4-6 install ok installed r-base r-base 4.4.2-1 install ok installed r-base-core r-base-core 4.4.2-1 install ok installed r-cran-boot r-cran-boot 1.3-31-1 install ok installed r-cran-class r-cran-class 7.3-22-2 install ok installed r-cran-cluster r-cran-cluster 2.1.8-1 install ok installed r-cran-codetools r-cran-codetools 0.2-20-1 install ok installed r-cran-foreign r-cran-foreign 0.8.87-1 install ok installed r-cran-kernsmooth r-cran-kernsmooth 2.23-24-1 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 install ok installed r-cran-mass r-cran-mass 7.3-61-1 install ok installed r-cran-matrix r-cran-matrix 1.7-1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.9-1-1 install ok installed r-cran-nlme r-cran-nlme 3.1.166-1 install ok installed r-cran-nnet r-cran-nnet 7.3-19-2 install ok installed r-cran-rpart r-cran-rpart 4.1.23-1 install ok installed r-cran-spatial r-cran-spatial 7.3-17-1 install ok installed r-cran-survival r-cran-survival 3.7-0-1 install ok installed r-recommended r-recommended 4.4.2-1 install ok installed readline-common readline-common 8.2-6 install ok installed reapr reapr 1.0.18+dfsg-7 install ok installed samtools samtools 1.20-3 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed smalt smalt 0.7.6-13 install ok installed snpomatic snpomatic 1.0-7 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tabix tabix 1.20+ds-2 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2024b-4 install ok installed ucf ucf 3.0046 install ok installed unzip unzip 6.0-28 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-12 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xdg-utils xdg-utils 1.2.1-2 install ok installed zip zip 3.0-14 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m39.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m39.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'remove', 'bamtools', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libatomic1:amd64', 'libbambamc0:amd64', 'libbamtools2.5.2:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfile-copy-link-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp26:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpaper2:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libtabixpp0t64:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base', 'r-base-core', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-recommended', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'snpomatic', 'tabix', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'reapr'] 0m41.1s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bamtools ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libatomic1 libbambamc0 libbamtools2.5.2 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfile-copy-link-perl libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libice6 libicu72 libjbig0 libjpeg62-turbo libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 libncurses6 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpaper2 libperl5.40 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libtabixpp0t64 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 openssl perl perl-modules-5.40 procps r-base r-base-core r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-recommended readline-common reapr samtools sensible-utils smalt snpomatic tabix ucf unzip x11-common xdg-utils zip 0 upgraded, 0 newly installed, 122 to remove and 0 not upgraded. After this operation, 235 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 ... 12111 files and directories currently installed.) Removing reapr (1.0.18+dfsg-7) ... Removing bamtools (2.5.2+dfsg-6+b1) ... Removing r-base (4.4.2-1) ... Removing r-recommended (4.4.2-1) ... Removing r-cran-rpart (4.1.23-1) ... Removing r-cran-survival (3.7-0-1) ... Removing r-cran-mgcv (1.9-1-1) ... Removing r-cran-matrix (1.7-1-1) ... Removing r-cran-spatial (7.3-17-1) ... Removing r-cran-nnet (7.3-19-2) ... Removing r-cran-class (7.3-22-2) ... Removing smalt (0.7.6-13) ... Removing libbambamc0:amd64 (0.0.50-6+b2) ... Removing libbamtools2.5.2:amd64 (2.5.2+dfsg-6+b1) ... Removing r-cran-kernsmooth (2.23-24-1) ... Removing samtools (1.20-3) ... Removing libtabixpp0t64:amd64 (1.1.2-2.1+b1) ... Removing libhts3t64:amd64 (1.20+ds-2) ... Removing libcurl3t64-gnutls:amd64 (8.11.1-1) ... Removing tabix (1.20+ds-2) ... Removing libfile-copy-link-perl (0.140-5) ... Removing libpaper1:amd64 (1.1.29+b2) ... Removing libhtscodecs2:amd64 (1.6.1-1) ... Removing libjsoncpp26:amd64 (1.9.6-3) ... Removing libncurses6:amd64 (6.5-2+b1) ... Removing libnghttp3-9:amd64 (1.6.0-2) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Removing libngtcp2-16:amd64 (1.9.1-1) ... Removing r-cran-boot (1.3-31-1) ... Removing r-cran-cluster (2.1.8-1) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-foreign (0.8.87-1) ... Removing r-cran-nlme (3.1.166-1) ... Removing r-cran-lattice (0.22-6-1) ... Removing snpomatic (1.0-7) ... Removing r-cran-mass (7.3-61-1) ... Removing r-base-core (4.4.2-1) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.55.0+ds-3) ... Removing libpangoft2-1.0-0:amd64 (1.55.0+ds-3) ... Removing libpango-1.0-0:amd64 (1.55.0+ds-3) ... Removing fontconfig (2.15.0-1.1+b1) ... Removing libtk8.6:amd64 (8.6.15-1) ... Removing libxft2:amd64 (2.3.6-1+b3) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libfontconfig1:amd64 (2.15.0-1.1+b1) ... Removing fontconfig-config (2.15.0-1.1+b1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libharfbuzz0b:amd64 (10.1.0-1) ... Removing libglib2.0-0t64:amd64 (2.82.4-1) ... Removing libatomic1:amd64 (14.2.0-11) ... Removing liblapack3:amd64 (3.12.0-4) ... Removing libblas3:amd64 (3.12.0-4) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libcurl4t64:amd64 (8.11.1-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing libthai0:amd64 (0.1.29-2+b1) ... Removing libdatrie1:amd64 (0.2.13-3+b1) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.22-1) ... Removing libexpat1:amd64 (2.6.4-1) ... Removing libfribidi0:amd64 (1.0.16-1) ... Removing ucf (3.0046) ... Removing perl (5.40.0-8) ... Removing libperl5.40:amd64 (5.40.0-8) ... Removing libgdbm-compat4t64:amd64 (1.24-2) ... Removing libgdbm6t64:amd64 (1.24-2) ... Removing libgfortran5:amd64 (14.2.0-11) ... Removing libgomp1:amd64 (14.2.0-11) ... Removing libgraphite2-3:amd64 (1.3.14-2+b1) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libxt6t64:amd64 (1:1.2.1-1.2+b1) ... Removing libsm6:amd64 (2:1.2.4-1) ... Removing libice6:amd64 (2:1.1.1-1) ... Removing libicu72:amd64 (72.1-5+b1) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-4) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing procps (2:4.0.4-6) ... Removing libncursesw6:amd64 (6.5-2+b1) ... Removing libnghttp2-14:amd64 (1.64.0-1) ... Removing libpaper-utils (2.2.5-0.3) ... Removing libpaper2:amd64 (2.2.5-0.3) ... Removing libpixman-1-0:amd64 (0.44.0-3) ... Removing libpng16-16t64:amd64 (1.6.44-3) ... Removing libproc2-0:amd64 (2:4.0.4-6) ... Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ... Removing libreadline8t64:amd64 (8.2-6) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libwebp7:amd64 (1.4.0-0.1+b1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Removing libssh2-1t64:amd64 (1.11.1-1) ... Removing libtcl8.6:amd64 (8.6.15+dfsg-2) ... Removing libthai-data (0.1.29-2) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing libxss1:amd64 (1:1.2.3-1+b2) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b3) ... Removing libxcb-shm0:amd64 (1.17.0-2+b1) ... Removing libxcb-render0:amd64 (1.17.0-2+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b2) ... Removing openssl (3.3.2-2) ... Removing perl-modules-5.40 (5.40.0-8) ... Removing readline-common (8.2-6) ... Removing sensible-utils (0.0.24) ... Removing unzip (6.0-28) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xdg-utils (1.2.1-2) ... Removing zip (3.0-14) ... Removing libx11-6:amd64 (2:1.8.10-2) ... Removing libx11-data (2:1.8.10-2) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.5-1) ... Processing triggers for libc-bin (2.40-4) ... 0m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'remove', 'bamtools', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libatomic1:amd64', 'libbambamc0:amd64', 'libbamtools2.5.2:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfile-copy-link-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp26:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpaper2:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libtabixpp0t64:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base', 'r-base-core', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-recommended', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'snpomatic', 'tabix', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'reapr'] 0m41.1s INFO: Running scripts post_remove 0m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_remove_exceptions'] 0m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_remove_exceptions'] 0m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', 'bamtools', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libatomic1:amd64', 'libbambamc0:amd64', 'libbamtools2.5.2:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfile-copy-link-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp26:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpaper2:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libtabixpp0t64:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base', 'r-base-core', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-recommended', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'snpomatic', 'tabix', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 0m41.7s DUMP: dpkg: warning: ignoring request to remove bamtools which isn't installed (Reading database ... 5190 files and directories currently installed.) Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fontconfig (2.15.0-1.1+b1) ... Purging configuration files for fontconfig-config (2.15.0-1.1+b1) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbambamc0 which isn't installed dpkg: warning: ignoring request to remove libbamtools2.5.2 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which isn't installed dpkg: warning: ignoring request to remove libcurl4t64 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 libfile-copy-link-perl which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.82.4-1) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu72 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 libjsoncpp26 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove 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 libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed dpkg: warning: ignoring request to remove 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 libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+b2) ... Purging configuration files for libpaper2:amd64 (2.2.5-0.3) ... dpkg: warning: ignoring request to remove libperl5.40 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-6) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libtabixpp0t64 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 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 libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... dpkg: warning: ignoring request to remove libtk8.6 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 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 libxft2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed Purging configuration files for openssl (3.3.2-2) ... Purging configuration files for perl (5.40.0-8) ... dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed Purging configuration files for procps (2:4.0.4-6) ... dpkg: warning: ignoring request to remove r-base which isn't installed Purging configuration files for r-base-core (4.4.2-1) ... dpkg: warning: ignoring request to remove r-cran-boot which isn't installed dpkg: warning: ignoring request to remove r-cran-class which isn't installed dpkg: warning: ignoring request to remove r-cran-cluster which isn't installed dpkg: warning: ignoring request to remove r-cran-codetools which isn't installed dpkg: warning: ignoring request to remove r-cran-foreign which isn't installed dpkg: warning: ignoring request to remove r-cran-kernsmooth which isn't installed dpkg: warning: ignoring request to remove r-cran-lattice which isn't installed dpkg: warning: ignoring request to remove r-cran-mass which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-mgcv which isn't installed dpkg: warning: ignoring request to remove r-cran-nlme which isn't installed dpkg: warning: ignoring request to remove r-cran-nnet which isn't installed dpkg: warning: ignoring request to remove r-cran-rpart which isn't installed dpkg: warning: ignoring request to remove r-cran-spatial which isn't installed dpkg: warning: ignoring request to remove r-cran-survival which isn't installed dpkg: warning: ignoring request to remove r-recommended which isn't installed Purging configuration files for readline-common (8.2-6) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove smalt which isn't installed dpkg: warning: ignoring request to remove snpomatic which isn't installed dpkg: warning: ignoring request to remove tabix which isn't installed Purging configuration files for ucf (3.0046) ... Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: ignoring request to remove xdg-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 0m41.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', 'bamtools', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'libatomic1:amd64', 'libbambamc0:amd64', 'libbamtools2.5.2:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfile-copy-link-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libice6:amd64', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp26:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpaper2:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libtabixpp0t64:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'procps', 'r-base', 'r-base-core', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-recommended', 'readline-common', 'samtools', 'sensible-utils', 'smalt', 'snpomatic', 'tabix', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 0m41.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', 'reapr'] 0m41.8s DUMP: dpkg: warning: ignoring request to remove reapr which isn't installed 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', 'reapr'] 0m41.8s INFO: Running scripts post_purge 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_purge_exceptions'] 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_purge_exceptions'] 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', '--pending'] 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--purge', '--pending'] 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--remove', '--pending'] 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg', '--remove', '--pending'] 0m41.8s INFO: Running scripts post_test 0m41.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_test_exceptions'] 0m41.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'tmp/scripts/post_test_exceptions'] 0m41.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m42.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m42.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-divert', '--list'] 0m42.1s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m42.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'dpkg-divert', '--list'] 0m42.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'clean'] 0m42.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7', 'apt-get', 'clean'] 0m42.2s DEBUG: Recording chroot state 0m43.1s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned 0m43.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/shm'] 0m43.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/shm'] 0m43.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/console'] 0m43.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/console'] 0m43.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/ptmx'] 0m43.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/ptmx'] 0m43.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts'] 0m43.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/dev/pts'] 0m43.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/proc'] 0m43.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7/proc'] 0m43.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m43.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpt2o5pth7'] 0m43.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpt2o5pth7 0m43.8s INFO: PASS: Upgrading between Debian distributions. 0m43.8s INFO: PASS: All tests. 0m43.8s INFO: piuparts run ends. ret=0 End: 2024-12-22 04:03:56 GMT