Start: 2024-10-11 16:48:46 GMT Package: unicycler Version: 0.5.0+dfsg-1 Installed-Size: 3108 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3 (>= 3~), python3:any, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4), python3-setuptools, default-jre, bcftools, bowtie2, miniasm, ncbi-blast+, pilon, racon, samtools, spades (>= 3.14) Recommends: unicycler-data Description: hybrid assembly pipeline for bacterial genomes Homepage: https://github.com/rrwick/Unicycler Description-md5: 0f68c8d94a4296faee946873e441867a Section: science Priority: optional Filename: pool/main/u/unicycler/unicycler_0.5.0+dfsg-1_amd64.deb Size: 863204 MD5sum: 1dde449b053205bb8019af217837cf69 SHA256: 3eca64bca0c5afe52dacdd22765e991c1b63b9cc67fa69524a53f4f99d91bf36 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-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm --no-upgrade-test --apt unicycler=0.5.0+dfsg-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm --no-upgrade-test --apt unicycler=0.5.0+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-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/tmpkcoboqet 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpkcoboqet 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.2s DEBUG: Created policy-rc.d and chmodded it. 0m0.2s DEBUG: Created resolv.conf. 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmpkcoboqet/tmp/scripts/ 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpkcoboqet/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'update'] 0m0.9s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m0.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'update'] 0m0.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', '-yf', 'dist-upgrade'] 0m1.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', '-yf', 'dist-upgrade'] 0m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.3s DUMP: 14b5c1b94e8a6c425b0bba0e4df4ee12 - 0m1.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.3s INFO: Running scripts post_setup 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_dummy_users'] 0m1.7s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_dummy_users'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_forbid_home'] 0m1.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_forbid_home'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.7s 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' 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_minimize'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_minimize'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_zz_backports'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_setup_zz_backports'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'clean'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'clean'] 0m1.7s DEBUG: Recording chroot state 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.0s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u7 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.30-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.30-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-divert', '--list'] 0m2.0s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-divert', '--list'] 0m2.0s INFO: Running scripts is_testable 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/is_testable_uninstallable'] 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/is_testable_uninstallable'] 0m2.0s INFO: apt-cache does not know about any of the requested packages 0m2.0s INFO: Running scripts pre_test 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_test_exceptions'] 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_test_exceptions'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_test_root_password'] 0m2.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_test_root_password'] 0m2.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m2.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m2.5s DEBUG: No broken symlinks as far as we can find. 0m2.5s INFO: Running scripts pre_install 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_database-server'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_database-server'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_exceptions'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_exceptions'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_extras'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_extras'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_log_alternatives'] 0m2.5s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_install_log_alternatives'] 0m2.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m2.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m3.0s DEBUG: No broken symlinks as far as we can find. 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-cache', 'policy'] 0m3.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.7,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-cache', 'policy'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-cache', 'policy', 'unicycler'] 0m3.4s DUMP: unicycler: Installed: (none) Candidate: 0.5.0+dfsg-1 Version table: 0.5.0+dfsg-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-cache', 'policy', 'unicycler'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', '-y', 'install', 'unicycler=0.5.0+dfsg-1'] 0m30.8s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: adwaita-icon-theme at-spi2-common bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme java-common java-wrappers libapache-pom-java libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.2 libbrotli1 libbsd0 libcairo2 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4 libgdbm6 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu72 libjbig0 libjpeg62-turbo libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-jni libnlopt0 libnsl2 libnspr4 libnss3 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre3 libpcsclite1 libperl5.36 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl perl perl-modules-5.36 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.11 python3.11-minimal racon readline-common samtools scala-library shared-mime-info spades unzip x11-common Suggested packages: python3-numpy python3-matplotlib texlive-latex-recommended bowtie2-examples libasound2-plugins alsa-utils libasm-java libxz-java libcommons-lang-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common gdbm-l10n low-memory-monitor krb5-doc krb5-user gvfs picard-tools liblcms2-utils libngs-java-doc pciutils pcscd sensible-utils rhino lm-sensors libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python-setuptools-doc python3.11-venv python3.11-doc binutils binfmt-support readline-doc cwltool zip Recommended packages: librsvg2-common alsa-ucm-conf alsa-topology-conf dbus libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs libgail-common libgtk2.0-bin krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules minimap libatk-wrapper-java-jni fonts-dejavu-extra netbase psmisc python3-numpy python3-pytest python3-simplejson python3-psutil rampler unicycler-data The following NEW packages will be installed: adwaita-icon-theme at-spi2-common bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme java-common java-wrappers libapache-pom-java libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.2 libbrotli1 libbsd0 libcairo2 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4 libgdbm6 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu72 libjbig0 libjpeg62-turbo libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-jni libnlopt0 libnsl2 libnspr4 libnss3 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre3 libpcsclite1 libperl5.36 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl perl perl-modules-5.36 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.11 python3.11-minimal racon readline-common samtools scala-library shared-mime-info spades unicycler unzip x11-common 0 upgraded, 196 newly installed, 0 to remove and 0 not upgraded. Need to get 190 MB of archives. After this operation, 753 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.14-1~deb12u1 [2024 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6+deb12u2 [814 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6+deb12u2 [2067 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:16 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6+deb12u2 [1799 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6+deb12u2 [573 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:27 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libproc2-0 amd64 2:4.0.2-3 [62.8 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 procps amd64 2:4.0.2-3 [709 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.14-1~deb12u1 [1423 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1+deb12u1 [306 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 shared-mime-info amd64 2.2-1 [729 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-1+deb12u1 [139 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 gtk-update-icon-cache amd64 3.24.38-2~deb12u2 [44.2 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 adwaita-icon-theme all 43-1 [5124 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 at-spi2-common all 2.46.0-5 [162 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-4 [149 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 bamtools amd64 2.5.2+dfsg-4 [193 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-10+deb12u7 [385 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 bcftools amd64 1.16-1 [692 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 bowtie2 amd64 2.5.0-3+b2 [1409 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 bwa amd64 0.7.17-7+b2 [212 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20230710~deb12u1 [11.9 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.74 [6388 B] Get:68 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.10-1~deb12u1 [201 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3+deb12u7 [245 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.87.1-1 [1331 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1+b1 [362 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-2 [49.7 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.12+7-2~deb12u1 [43.7 MB] Get:86 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-74 [2936 B] Get:87 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-common all 2.24.33-2+deb12u1 [2660 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libatk1.0-0 amd64 2.46.0-5 [49.6 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libxdamage1 amd64 1:1.1.6-1 [15.1 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1+b1 [84.2 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-0 amd64 2.24.33-2+deb12u1 [1811 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.6.0-1 [51.8 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.114-1 [7112 B] Get:119 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.114-1+b1 [37.5 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.3.6-1+deb12u1 [35.7 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.8.4-2+deb12u2 [192 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libxcb-randr0 amd64 1.15-1 [117 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:130 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.114-1+b1 [20.9 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libdrm-intel1 amd64 2.4.114-1+b1 [64.0 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.114-1+b1 [19.1 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.114-1+b1 [21.8 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-3.1 [7216 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libllvm15 amd64 1:15.0.6-4+b1 [23.1 MB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7.1 [34.2 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.3.6-1+deb12u1 [7239 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.3.6-1+deb12u1 [147 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.6.0-1 [34.4 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.6.0-1 [88.4 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre amd64 17.0.12+7-2~deb12u1 [184 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.17-74 [1056 B] Get:151 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 java-wrappers all 0.4 [8916 B] Get:153 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 29-2 [5276 B] Get:154 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libcommons-compress-java all 1.22-1 [615 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libedlib1 amd64 1.2.7-4+b1 [17.8 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2 [1050 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-6~deb12u1 [154 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libngs-jni amd64 3.0.3+dfsg-6~deb12u1 [23.5 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libngs-java amd64 3.0.3+dfsg-6~deb12u1 [110 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-3 [26.0 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libsnappy-jni amd64 1.1.8.3-1 [7152 B] Get:173 http://deb.debian.org/debian bookworm/main amd64 libsnappy-java all 1.1.8.3-1 [98.9 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 libhtsjdk-java all 3.0.4+dfsg-2 [1813 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.4-4 [103 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libnlopt0 amd64 2.7.1-5 [174 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libspoa7.0.0 amd64 4.0.8-1 [68.4 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libssw0 amd64 1.1-13 [19.7 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 miniasm amd64 0.3+dfsg-4 [29.9 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get:185 http://deb.debian.org/debian bookworm/main amd64 scala-library all 2.11.12-5 [9588 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 pilon all 1.24-2 [497 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-3 [131 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 python3-joblib all 1.2.0-4 [211 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 66.1.1-1 [521 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 python3-yaml amd64 6.0-3+b2 [119 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 racon amd64 1.5.0-3 [3115 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 samtools amd64 1.16.1-1 [607 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 spades amd64 3.15.5+dfsg-2 [8663 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 unicycler amd64 0.5.0+dfsg-1 [863 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 190 MB in 12s (16.2 MB/s) Selecting previously unselected package perl-modules-5.36. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6094 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Selecting previously unselected package python3.11-minimal. Preparing to unpack .../8-python3.11-minimal_3.11.2-6+deb12u2_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6+deb12u2) ... Setting up libssl3:amd64 (3.0.14-1~deb12u1) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6+deb12u2) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6+deb12u2) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8426 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../02-libncursesw6_6.4-4_amd64.deb ... Unpacking libncursesw6:amd64 (6.4-4) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../03-libkrb5support0_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../04-libk5crypto3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../05-libkeyutils1_1.6.3-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../06-libkrb5-3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../07-libgssapi-krb5-2_1.20.1-2+deb12u2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../08-libtirpc-common_1.3.3+ds-1_all.deb ... Unpacking libtirpc-common (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3:amd64. Preparing to unpack .../09-libtirpc3_1.3.3+ds-1_amd64.deb ... Unpacking libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../10-libnsl2_1.3.0-2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../11-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../12-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../13-libsqlite3-0_3.40.1-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.40.1-2) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../14-libpython3.11-stdlib_3.11.2-6+deb12u2_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... Selecting previously unselected package python3.11. Preparing to unpack .../15-python3.11_3.11.2-6+deb12u2_amd64.deb ... Unpacking python3.11 (3.11.2-6+deb12u2) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../16-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8934 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.2-3_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.2-3_amd64.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_3.0.14-1~deb12u1_amd64.deb ... Unpacking openssl (3.0.14-1~deb12u1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../005-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../006-libgdk-pixbuf2.0-common_2.42.10+dfsg-1+deb12u1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.10+dfsg-1+deb12u1) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../007-libglib2.0-0_2.74.6-2+deb12u3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../008-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../009-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../010-shared-mime-info_2.2-1_amd64.deb ... Unpacking shared-mime-info (2.2-1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../011-libjpeg62-turbo_1%3a2.1.5-2_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../012-libpng16-16_1.6.39-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../013-libdeflate0_1.14-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.14-1) ... 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Setting up libglvnd0:amd64 (1.6.0-1) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libmjson-java (1.4.0-3) ... Setting up unzip (6.0-28) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1+deb12u1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up scala-library (2.11.12-5) ... Setting up libnlopt0:amd64 (2.7.1-5) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libsnappy1v5:amd64 (1.1.9-3) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up libasound2-data (1.2.8-1) ... Setting up libpcre3:amd64 (2:8.39-15) ... Setting up librhino-java (1.7.14-2.1) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libz3-4:amd64 (4.8.12-3.1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libx11-data (2:1.8.4-2+deb12u2) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-10) ... Setting up libncurses6:amd64 (6.4-4) ... Setting up libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libproc2-0:amd64 (2:4.0.2-3) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libspoa7.0.0:amd64 (4.0.8-1) ... Setting up libjsoncpp25:amd64 (1.9.5-4) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libpcsclite1:amd64 (1.9.9-2) ... Setting up libsensors5:amd64 (1:3.6.0-7.1) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Setting up libbamtools2.5.2:amd64 (2.5.2+dfsg-4) ... Setting up libglapi-mesa:amd64 (22.3.6-1+deb12u1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Setting up libgif7:amd64 (5.2.1-2.5) ... Setting up libedlib1:amd64 (1.2.7-4+b1) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up at-spi2-common (2.46.0-5) ... Setting up libtiff6:amd64 (4.5.0-6+deb12u1) ... Setting up bamtools (2.5.2+dfsg-4) ... Setting up procps (2:4.0.2-3) ... Setting up libasound2:amd64 (1.2.8-1+b1) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libthai-data (0.1.29-1) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libgtk2.0-common (2.24.33-2+deb12u1) ... Setting up libatk1.0-0:amd64 (2.46.0-5) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Setting up openssl (3.0.14-1~deb12u1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libdrm-common (2.4.114-1) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up libssw0:amd64 (1.1-13) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libxcb-xfixes0:amd64 (1.15-1) ... Setting up java-wrappers (0.4) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-10) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libnss3:amd64 (2:3.87.1-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libfreetype6:amd64 (2.12.1+dfsg-5+deb12u3) ... Setting up libxcb-sync1:amd64 (1.15-1) ... Setting up shared-mime-info (2.2-1) ... Setting up racon (1.5.0-3) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libxcb-dri2-0:amd64 (1.15-1) ... Setting up libdrm2:amd64 (2.4.114-1+b1) ... Setting up libxcb-randr0:amd64 (1.15-1) ... Setting up libllvm15:amd64 (1:15.0.6-4+b1) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+deb12u1) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up ca-certificates-java (20230710~deb12u1) ... No JRE found. Skipping Java certificates setup. Setting up libxcomposite1:amd64 (1:0.4.5-1) ... Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up libdrm-amdgpu1:amd64 (2.4.114-1+b1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up gtk-update-icon-cache (3.24.38-2~deb12u2) ... Setting up libx11-xcb1:amd64 (2:1.8.4-2+deb12u2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libngs-jni:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libdrm-nouveau2:amd64 (2.4.114-1+b1) ... Setting up libxdamage1:amd64 (1:1.1.6-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up libdrm-radeon1:amd64 (2.4.114-1+b1) ... Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libdrm-intel1:amd64 (2.4.114-1+b1) ... Setting up libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10+deb12u7) ... Setting up libcairo2:amd64 (1.16.0-7) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up adwaita-icon-theme (43-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libxfixes3:amd64 (1:6.0.0-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up libcups2:amd64 (2.4.2-3+deb12u7) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libngs-java:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libhtsjdk-java (3.0.4+dfsg-2) ... Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libglx-mesa0:amd64 (22.3.6-1+deb12u1) ... Setting up libxi6:amd64 (2:1.8-1+b1) ... Setting up libglx0:amd64 (1.6.0-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up bcftools (1.16-1) ... Setting up samtools (1.16.1-1) ... Setting up libgl1:amd64 (1.6.0-1) ... Setting up openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6+deb12u2) ... Setting up libgtk2.0-0:amd64 (2.24.33-2+deb12u1) ... Setting up python3 (3.11.2-1+b1) ... Setting up bowtie2 (2.5.0-3+b2) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-joblib (1.2.0-4) ... Setting up python3-yaml (6.0-3+b2) ... Setting up spades (3.15.5+dfsg-2) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... Processing triggers for ca-certificates-java (20230710~deb12u1) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068_2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:E-Tugra_Global_Root_CA_ECC_v3.pem Adding debian:E-Tugra_Global_Root_CA_RSA_v3.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up default-jre-headless (2:1.17-74) ... Setting up openjdk-17-jre:amd64 (17.0.12+7-2~deb12u1) ... Setting up default-jre (2:1.17-74) ... Setting up pilon (1.24-2) ... Setting up unicycler (0.5.0+dfsg-1) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20230710~deb12u1) ... done. 0m30.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', '-y', 'install', 'unicycler=0.5.0+dfsg-1'] 0m30.8s INFO: Running scripts post_install 0m30.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_install_exceptions'] 0m30.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_install_exceptions'] 0m30.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_install_log_alternatives'] 0m30.9s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=procps: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --remove w /usr/bin/w.procps LOG-ALTERNATIVES: dpkg=perl: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --remove rename /usr/bin/prename LOG-ALTERNATIVES: dpkg=adwaita-icon-theme: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/share/icons/default/index.theme x-cursor-theme /usr/share/icons/Adwaita/cursor.theme 90 LOG-ALTERNATIVES: dpkg=openjdk-17-jre-headless: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/bin/java java /usr/lib/jvm/java-17-openjdk-amd64/bin/java 1711 --slave /usr/share/man/man1/java.1.gz java.1.gz /usr/lib/jvm/java-17-openjdk-amd64/man/man1/java.1.gz LOG-ALTERNATIVES: dpkg=openjdk-17-jre-headless: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/bin/jpackage jpackage /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage 1711 --slave /usr/share/man/man1/jpackage.1.gz jpackage.1.gz /usr/lib/jvm/java-17-openjdk-amd64/man/man1/jpackage.1.gz LOG-ALTERNATIVES: dpkg=openjdk-17-jre-headless: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/bin/keytool keytool /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool 1711 --slave /usr/share/man/man1/keytool.1.gz keytool.1.gz /usr/lib/jvm/java-17-openjdk-amd64/man/man1/keytool.1.gz LOG-ALTERNATIVES: dpkg=openjdk-17-jre-headless: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/bin/rmiregistry rmiregistry /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry 1711 --slave /usr/share/man/man1/rmiregistry.1.gz rmiregistry.1.gz /usr/lib/jvm/java-17-openjdk-amd64/man/man1/rmiregistry.1.gz LOG-ALTERNATIVES: dpkg=openjdk-17-jre-headless: piuparts=unicycler=0.5.0+dfsg-1: /usr/bin/update-alternatives --install /usr/bin/jexec jexec /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec 1711 --slave /usr/share/binfmts/jar jexec-binfmt /usr/lib/jvm/java-17-openjdk-amd64/lib/jar.binfmt 0m30.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_install_log_alternatives'] 0m30.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m31.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m32.5s ERROR: WARN: Broken symlinks: /usr/lib/jvm/java-17-openjdk-amd64/lib/libatk-wrapper.so -> ../../../x86_64-linux-gnu/jni/libatk-wrapper.so (openjdk-17-jre:amd64) 0m32.5s INFO: /bin converted to /usr/bin by /usr merge 0m32.5s INFO: /lib converted to /usr/lib by /usr merge 0m32.5s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m32.5s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m32.5s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m32.5s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m32.5s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m32.5s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m32.5s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m32.5s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m32.5s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m32.5s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m32.5s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m32.5s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m32.5s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m32.5s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m32.5s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m32.5s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m32.5s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m32.5s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m32.5s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m32.5s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m32.5s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m32.5s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m32.5s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m32.5s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m32.5s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m32.5s INFO: /sbin converted to /usr/sbin by /usr merge 0m33.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', '-ac', '--ignore-obsolete'] 0m35.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', '-ac', '--ignore-obsolete'] 0m35.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m35.4s DUMP: 0.15.6 0m35.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m35.4s INFO: Running adequate version 0.15.6 now. 0m35.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'unicycler'] 0m35.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'unicycler'] 0m35.5s INFO: Running scripts pre_remove 0m35.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m35.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m35.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m35.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m35.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_exceptions'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/pre_remove_exceptions'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m38.0s DUMP: install ok installed adduser adduser 3.134 install ok installed adwaita-icon-theme adwaita-icon-theme 43-1 install ok installed apt apt 2.6.1 install ok installed at-spi2-common at-spi2-common 2.46.0-5 install ok installed bamtools bamtools 2.5.2+dfsg-4 install ok installed base-files base-files 12.4+deb12u7 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bcftools bcftools 1.16-1 install ok installed bowtie2 bowtie2 2.5.0-3+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed bwa bwa 0.7.17-7+b2 install ok installed ca-certificates ca-certificates 20230311 install ok installed ca-certificates-java ca-certificates-java 20230710~deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed default-jre default-jre 2:1.17-74 install ok installed default-jre-headless default-jre-headless 2:1.17-74 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed fontconfig fontconfig 2.14.1-4 install ok installed fontconfig-config fontconfig-config 2.14.1-4 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-6 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.38-2~deb12u2 install ok installed gzip gzip 1.12-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed java-common java-common 0.74 install ok installed java-wrappers java-wrappers 0.4 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapache-pom-java libapache-pom-java 29-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libasound2:amd64 libasound2 1.2.8-1+b1 install ok installed libasound2-data libasound2-data 1.2.8-1 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.46.0-5 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-10 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-10 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-10 install ok installed libbamtools2.5.2:amd64 libbamtools2.5.2 2.5.2+dfsg-4 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b6 install ok installed libbsd0:amd64 libbsd0 0.11.7-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcairo2:amd64 libcairo2 1.16.0-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcommons-compress-java libcommons-compress-java 1.22-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang-java libcommons-lang-java 2.6-10 install ok installed libcommons-logging-java libcommons-logging-java 1.2-3 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libcups2:amd64 libcups2 2.4.2-3+deb12u7 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.88.1-10+deb12u7 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.10-1~deb12u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libdeflate0:amd64 libdeflate0 1.14-1 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.114-1+b1 install ok installed libdrm-common libdrm-common 2.4.114-1 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.114-1+b1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.114-1+b1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.114-1+b1 install ok installed libdrm2:amd64 libdrm2 2.4.114-1+b1 install ok installed libedit2:amd64 libedit2 3.1-20221030-2 install ok installed libedlib1:amd64 libedlib1 1.2.7-4+b1 install ok installed libelf1:amd64 libelf1 0.188-2.1 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.14.1-4 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-5+deb12u3 install ok installed libfribidi0:amd64 libfribidi0 1.0.8-2.1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.10+dfsg-1+deb12u1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.10+dfsg-1+deb12u1 install ok installed libgif7:amd64 libgif7 5.2.1-2.5 install ok installed libgl1:amd64 libgl1 1.6.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 22.3.6-1+deb12u1 install ok installed libglapi-mesa:amd64 libglapi-mesa 22.3.6-1+deb12u1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.74.6-2+deb12u3 install ok installed libglvnd0:amd64 libglvnd0 1.6.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 22.3.6-1+deb12u1 install ok installed libglx0:amd64 libglx0 1.6.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgomp1:amd64 libgomp1 12.2.0-14 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-2+deb12u2 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.33-2+deb12u1 install ok installed libgtk2.0-common libgtk2.0-common 2.24.33-2+deb12u1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 6.0.0+dfsg-3 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libhts3:amd64 libhts3 1.16+ds-3 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.3.0-4 install ok installed libhtsjdk-java libhtsjdk-java 3.0.4+dfsg-2 install ok installed libicu72:amd64 libicu72 72.1-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-2 install ok installed libjsoncpp25:amd64 libjsoncpp25 1.9.5-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-2+deb12u2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-2+deb12u2 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-2+deb12u2 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-2 install ok installed libllvm15:amd64 libllvm15 1:15.0.6-4+b1 install ok installed liblmdb0:amd64 liblmdb0 0.9.24-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.3-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.3-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.3-1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.0.3+dfsg-6~deb12u1 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.2+dfsg-2 install ok installed libncurses6:amd64 libncurses6 6.4-4 install ok installed libncursesw6:amd64 libncursesw6 6.4-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.52.0-1+deb12u1 install ok installed libngs-java:amd64 libngs-java 3.0.3+dfsg-6~deb12u1 install ok installed libngs-jni:amd64 libngs-jni 3.0.3+dfsg-6~deb12u1 install ok installed libnlopt0:amd64 libnlopt0 2.7.1-5 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.35-1 install ok installed libnss3:amd64 libnss3 2:3.87.1-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.50.12+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.50.12+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.50.12+ds-1 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-15 install ok installed libpcsclite1:amd64 libpcsclite1 1.9.9-2 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.39-2 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.2-3 install ok installed libpsl5:amd64 libpsl5 0.21.2-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.2-1+b1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.2-6+deb12u2 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.2-6+deb12u2 install ok installed libreadline8:amd64 libreadline8 8.2-1.3 install ok installed librhino-java librhino-java 1.7.14-2.1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsensors-config libsensors-config 1:3.6.0-7.1 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-7.1 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libsnappy-java libsnappy-java 1.1.8.3-1 install ok installed libsnappy-jni libsnappy-jni 1.1.8.3-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.1.9-3 install ok installed libspoa7.0.0:amd64 libspoa7.0.0 4.0.8-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.1-2 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.14-1~deb12u1 install ok installed libssw0:amd64 libssw0 1.1-13 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.30-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libthai-data libthai-data 0.1.29-1 install ok installed libthai0:amd64 libthai0 0.1.29-1 install ok installed libtiff6:amd64 libtiff6 4.5.0-6+deb12u1 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libudev1:amd64 libudev1 252.30-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libwebp7:amd64 libwebp7 1.2.4-0.2+deb12u1 install ok installed libx11-6:amd64 libx11-6 2:1.8.4-2+deb12u2 install ok installed libx11-data libx11-data 2:1.8.4-2+deb12u2 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.4-2+deb12u2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.15-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.15-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.15-1 install ok installed libxcb-present0:amd64 libxcb-present0 1.15-1 install ok installed libxcb-randr0:amd64 libxcb-randr0 1.15-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.15-1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.1-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.6-1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2 install ok installed libxi6:amd64 libxi6 2:1.8-1+b1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.3~deb12u1 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.2-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-1 install ok installed libz3-4:amd64 libz3-4 4.8.12-3.1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 10.0.0 install ok installed miniasm miniasm 0.3+dfsg-4 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-3+b1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-10 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.2+dfsg-2 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed openjdk-17-jre:amd64 openjdk-17-jre 17.0.12+7-2~deb12u1 install ok installed openjdk-17-jre-headless:amd64 openjdk-17-jre-headless 17.0.12+7-2~deb12u1 install ok installed openssl openssl 3.0.14-1~deb12u1 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl perl 5.36.0-7+deb12u1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed pilon pilon 1.24-2 install ok installed procps procps 2:4.0.2-3 install ok installed python3 python3 3.11.2-1+b1 install ok installed python3-distutils python3-distutils 3.11.2-3 install ok installed python3-joblib python3-joblib 1.2.0-4 install ok installed python3-lib2to3 python3-lib2to3 3.11.2-3 install ok installed python3-minimal python3-minimal 3.11.2-1+b1 install ok installed python3-pkg-resources python3-pkg-resources 66.1.1-1 install ok installed python3-setuptools python3-setuptools 66.1.1-1 install ok installed python3-yaml python3-yaml 6.0-3+b2 install ok installed python3.11 python3.11 3.11.2-6+deb12u2 install ok installed python3.11-minimal python3.11-minimal 3.11.2-6+deb12u2 install ok installed racon racon 1.5.0-3 install ok installed readline-common readline-common 8.2-1.3 install ok installed samtools samtools 1.16.1-1 install ok installed scala-library scala-library 2.11.12-5 install ok installed sed sed 4.9-1 install ok installed shared-mime-info shared-mime-info 2.2-1 install ok installed spades spades 3.15.5+dfsg-2 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed unicycler unicycler 0.5.0+dfsg-1 install ok installed unzip unzip 6.0-28 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed x11-common x11-common 1:7.7+23 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'remove', 'adwaita-icon-theme', 'at-spi2-common', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+-', 'ncbi-data', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'shared-mime-info', 'spades', 'unzip', 'x11-common', 'unicycler'] 0m39.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adwaita-icon-theme at-spi2-common bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme java-common java-wrappers libapache-pom-java libasound2 libasound2-data libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.2 libbrotli1 libbsd0 libcairo2 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdatrie1 libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgdbm-compat4 libgdbm6 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu72 libjbig0 libjpeg62-turbo libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libncbi-ngs3 libncbi-vdb3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-jni libnlopt0 libnsl2 libnspr4 libnss3 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre3 libpcsclite1 libperl5.36 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl perl perl-modules-5.36 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.11 python3.11-minimal racon readline-common samtools scala-library shared-mime-info spades unicycler unzip x11-common 0 upgraded, 0 newly installed, 196 to remove and 0 not upgraded. After this operation, 753 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 ... 19784 files and directories currently installed.) Removing unicycler (0.5.0+dfsg-1) ... Removing pilon (1.24-2) ... Removing default-jre (2:1.17-74) ... Removing openjdk-17-jre:amd64 (17.0.12+7-2~deb12u1) ... Removing libgtk2.0-0:amd64 (2.24.33-2+deb12u1) ... Removing adwaita-icon-theme (43-1) ... Removing libatk1.0-0:amd64 (2.46.0-5) ... Removing at-spi2-common (2.46.0-5) ... Removing spades (3.15.5+dfsg-2) ... Removing bamtools (2.5.2+dfsg-4) ... Removing bcftools (1.16-1) ... Removing bowtie2 (2.5.0-3+b2) ... Removing bwa (0.7.17-7+b2) ... Removing default-jre-headless (2:1.17-74) ... Removing openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... Removing ca-certificates-java (20230710~deb12u1) ... Removing ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Removing libpango-1.0-0:amd64 (1.50.12+ds-1) ... Removing fontconfig (2.14.1-4) ... Removing libcairo2:amd64 (1.16.0-7) ... Removing libfontconfig1:amd64 (2.14.1-4) ... Removing fontconfig-config (2.14.1-4) ... Removing fonts-dejavu-core (2.37-6) ... Removing gtk-update-icon-cache (3.24.38-2~deb12u2) ... Removing hicolor-icon-theme (0.17-2) ... Removing java-common (0.74) ... Removing java-wrappers (0.4) ... Removing libhtsjdk-java (3.0.4+dfsg-2) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-logging-java (1.2-3) ... Removing libcommons-lang-java (2.6-10) ... Removing libasound2:amd64 (1.2.8-1+b1) ... Removing libasound2-data (1.2.8-1) ... Removing libcups2:amd64 (2.4.2-3+deb12u7) ... Removing libavahi-client3:amd64 (0.8-10) ... Removing libavahi-common3:amd64 (0.8-10) ... Removing libavahi-common-data:amd64 (0.8-10) ... Removing libbamtools2.5.2:amd64 (2.5.2+dfsg-4) ... Removing libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Removing libfreetype6:amd64 (2.12.1+dfsg-5+deb12u3) ... Removing samtools (1.16.1-1) ... Removing libhts3:amd64 (1.16+ds-3) ... Removing libcurl3-gnutls:amd64 (7.88.1-10+deb12u7) ... Removing libbrotli1:amd64 (1.0.9-2+b6) ... Removing libgl1:amd64 (1.6.0-1) ... Removing libglx0:amd64 (1.6.0-1) ... Removing libglx-mesa0:amd64 (22.3.6-1+deb12u1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... Removing libllvm15:amd64 (1:15.0.6-4+b1) ... Removing libedit2:amd64 (3.1-20221030-2) ... Removing libcommons-compress-java (1.22-1) ... Removing libthai0:amd64 (0.1.29-1) ... Removing libdatrie1:amd64 (0.2.13-2+b1) ... Removing libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+deb12u1) ... Removing libtiff6:amd64 (4.5.0-6+deb12u1) ... Removing libdeflate0:amd64 (1.14-1) ... Removing libdrm-amdgpu1:amd64 (2.4.114-1+b1) ... Removing libdrm-radeon1:amd64 (2.4.114-1+b1) ... Removing libdrm-nouveau2:amd64 (2.4.114-1+b1) ... Removing libdrm-intel1:amd64 (2.4.114-1+b1) ... Removing racon (1.5.0-3) ... Removing libedlib1:amd64 (1.2.7-4+b1) ... Removing libelf1:amd64 (0.188-2.1) ... Removing python3-yaml (6.0-3+b2) ... Removing python3-setuptools (66.1.1-1) ... Removing python3-distutils (3.11.2-3) ... Removing ncbi-blast+ (2.12.0+ds-3+b1) ... Removing python3-joblib (1.2.0-4) ... Removing python3-pkg-resources (66.1.1-1) ... Removing libfribidi0:amd64 (1.0.8-2.1) ... Removing perl (5.36.0-7+deb12u1) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4:amd64 (1.23-3) ... Removing libgdbm6:amd64 (1.23-3) ... Removing libgdk-pixbuf2.0-common (2.42.10+dfsg-1+deb12u1) ... Removing libgif7:amd64 (5.2.1-2.5) ... Removing libglapi-mesa:amd64 (22.3.6-1+deb12u1) ... Removing shared-mime-info (2.2-1) ... Removing libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... Removing libglvnd0:amd64 (1.6.0-1) ... Removing libgomp1:amd64 (12.2.0-14) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libgtk2.0-common (2.24.33-2+deb12u1) ... Removing libhtscodecs2:amd64 (1.3.0-4) ... Removing libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Removing libicu72:amd64 (72.1-3) ... Removing libjbig0:amd64 (2.1-6.1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-2) ... Removing libjsoncpp25:amd64 (1.9.5-4) ... Removing liblcms2-2:amd64 (2.14-2) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Removing liblerc4:amd64 (4.0.0+ds-2) ... Removing liblmdb0:amd64 (0.9.24-1) ... Removing libngs-java:amd64 (3.0.3+dfsg-6~deb12u1) ... Removing libngs-jni:amd64 (3.0.3+dfsg-6~deb12u1) ... Removing libncbi-ngs3:amd64 (3.0.3+dfsg-6~deb12u1) ... Removing libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Removing libmbedtls14:amd64 (2.28.3-1) ... Removing libmbedx509-1:amd64 (2.28.3-1) ... Removing libmbedcrypto7:amd64 (2.28.3-1) ... Removing libmjson-java (1.4.0-3) ... Removing libncurses6:amd64 (6.4-4) ... Removing procps (2:4.0.2-3) ... Removing libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Removing libnlopt0:amd64 (2.7.1-5) ... Removing libnss3:amd64 (2:3.87.1-1) ... Removing libnspr4:amd64 (2:4.35-1) ... Removing libpciaccess0:amd64 (0.17-2) ... Removing libpcre3:amd64 (2:8.39-15) ... Removing libpcsclite1:amd64 (1.9.9-2) ... Removing libpixman-1-0:amd64 (0.42.2-1) ... Removing libpng16-16:amd64 (1.6.39-2) ... Removing libproc2-0:amd64 (2:4.0.2-3) ... Removing libpsl5:amd64 (0.21.2-1) ... Removing librhino-java (1.7.14-2.1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing libsensors5:amd64 (1:3.6.0-7.1) ... Removing libsensors-config (1:3.6.0-7.1) ... Removing libsnappy-java (1.1.8.3-1) ... Removing libsnappy-jni (1.1.8.3-1) ... Removing libsnappy1v5:amd64 (1.1.9-3) ... Removing libspoa7.0.0:amd64 (4.0.8-1) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing openssl (3.0.14-1~deb12u1) ... Removing libssw0:amd64 (1.1-13) ... Removing libthai-data (0.1.29-1) ... Removing libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Removing libx11-xcb1:amd64 (2:1.8.4-2+deb12u2) ... Removing libxcb-dri2-0:amd64 (1.15-1) ... Removing libxcb-dri3-0:amd64 (1.15-1) ... Removing libxcb-glx0:amd64 (1.15-1) ... Removing libxcb-present0:amd64 (1.15-1) ... Removing libxcb-randr0:amd64 (1.15-1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libxcb-sync1:amd64 (1.15-1) ... Removing libxcb-xfixes0:amd64 (1.15-1) ... Removing libxcomposite1:amd64 (1:0.4.5-1) ... Removing libxcursor1:amd64 (1:1.2.1-1) ... Removing libxdamage1:amd64 (1:1.1.6-1) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libxrandr2:amd64 (2:1.5.2-2+b1) ... Removing libxfixes3:amd64 (1:6.0.0-2) ... Removing libxi6:amd64 (2:1.8-1+b1) ... Removing libxinerama1:amd64 (2:1.1.4-3) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libyaml-0-2:amd64 (0.2.5-1) ... Removing libz3-4:amd64 (4.8.12-3.1) ... Removing miniasm (0.3+dfsg-4) ... Removing ncbi-data (6.1.20170106+dfsg1-10) ... Removing ncbi-vdb-data (3.0.2+dfsg-2) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Removing python3-lib2to3 (3.11.2-3) ... Removing scala-library (2.11.12-5) ... Removing unzip (6.0-28) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (29-2) ... Removing libdrm2:amd64 (2.4.114-1+b1) ... Removing libdrm-common (2.4.114-1) ... Removing python3 (3.11.2-1+b1) ... Removing python3.11 (3.11.2-6+deb12u2) ... Removing python3-minimal (3.11.2-1+b1) ... Removing python3.11-minimal (3.11.2-6+deb12u2) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing libpython3-stdlib:amd64 (3.11.2-1+b1) ... Removing libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Removing libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Removing libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Removing libncursesw6:amd64 (6.4-4) ... Removing libpython3.11-minimal:amd64 (3.11.2-6+deb12u2) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2-1.3) ... Removing libsqlite3-0:amd64 (3.40.1-2) ... Removing libssl3:amd64 (3.0.14-1~deb12u1) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing media-types (10.0.0) ... Removing readline-common (8.2-1.3) ... Removing libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.7-2) ... Removing libx11-data (2:1.8.4-2+deb12u2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m39.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'remove', 'adwaita-icon-theme', 'at-spi2-common', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+-', 'ncbi-data', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'shared-mime-info', 'spades', 'unzip', 'x11-common', 'unicycler'] 0m39.8s INFO: Running scripts post_remove 0m39.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_remove_exceptions'] 0m39.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_remove_exceptions'] 0m39.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+', 'ncbi-data', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'shared-mime-info', 'spades', 'unzip', 'x11-common'] 0m40.1s DUMP: (Reading database ... 6193 files and directories currently installed.) Purging configuration files for adwaita-icon-theme (43-1) ... dpkg: warning: ignoring request to remove at-spi2-common which isn't installed dpkg: warning: ignoring request to remove bamtools which isn't installed dpkg: warning: ignoring request to remove bcftools which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove bwa which isn't installed Purging configuration files for ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20230710~deb12u1) ... dpkg: warning: ignoring request to remove default-jre which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for fontconfig (2.14.1-4) ... Purging configuration files for fontconfig-config (2.14.1-4) ... Purging configuration files for fonts-dejavu-core (2.37-6) ... dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed Purging configuration files for java-common (0.74) ... dpkg: warning: ignoring request to remove java-wrappers which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libasound2 which isn't installed dpkg: warning: ignoring request to remove libasound2-data which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0 which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libbamtools2.5.2 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libcups2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm-intel1 which isn't installed dpkg: warning: ignoring request to remove libdrm-nouveau2 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libedlib1 which isn't installed dpkg: warning: ignoring request to remove libelf1 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed Purging configuration files for libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+deb12u1) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgl1 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... dpkg: warning: ignoring request to remove libglvnd0 which isn't installed dpkg: warning: ignoring request to remove libglx-mesa0 which isn't installed dpkg: warning: ignoring request to remove libglx0 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Purging configuration files for libgtk2.0-0:amd64 (2.24.33-2+deb12u1) ... Purging configuration files for libgtk2.0-common (2.24.33-2+deb12u1) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libhtsjdk-java 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 libjsoncpp25 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove libllvm15 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmjson-java which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 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 libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni which isn't installed dpkg: warning: ignoring request to remove libnlopt0 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 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 libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpcre3 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.2-6+deb12u2) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed Purging configuration files for libsensors-config (1:3.6.0-7.1) ... dpkg: warning: ignoring request to remove libsensors5 which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libspoa7.0.0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed dpkg: warning: ignoring request to remove libssw0 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 (1.3.3+ds-1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libx11-xcb1 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri2-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-glx0 which isn't installed dpkg: warning: ignoring request to remove libxcb-present0 which isn't installed dpkg: warning: ignoring request to remove libxcb-randr0 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 libxcb-sync1 which isn't installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 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 libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed Purging configuration files for media-types (10.0.0) ... dpkg: warning: ignoring request to remove miniasm which isn't installed dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-10) ... dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed dpkg: warning: ignoring request to remove openjdk-17-jre which isn't installed Purging configuration files for openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... Purging configuration files for openssl (3.0.14-1~deb12u1) ... Purging configuration files for perl (5.36.0-7+deb12u1) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed dpkg: warning: ignoring request to remove pilon which isn't installed Purging configuration files for procps (2:4.0.2-3) ... Purging configuration files for python3 (3.11.2-1+b1) ... dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-joblib which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-setuptools which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.2-6+deb12u2) ... dpkg: warning: ignoring request to remove racon which isn't installed Purging configuration files for readline-common (8.2-1.3) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove scala-library which isn't installed Purging configuration files for shared-mime-info (2.2-1) ... dpkg: warning: ignoring request to remove spades which isn't installed Purging configuration files for unzip (6.0-28) ... Purging configuration files for x11-common (1:7.7+23) ... 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', 'adwaita-icon-theme', 'at-spi2-common', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.2:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu72:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+', 'ncbi-data', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'shared-mime-info', 'spades', 'unzip', 'x11-common'] 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', 'unicycler'] 0m40.1s DUMP: dpkg: warning: ignoring request to remove unicycler which isn't installed 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', 'unicycler'] 0m40.1s INFO: Running scripts post_purge 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_purge_exceptions'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_purge_exceptions'] 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', '--pending'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--purge', '--pending'] 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--remove', '--pending'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg', '--remove', '--pending'] 0m40.1s INFO: Running scripts post_test 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_test_exceptions'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'tmp/scripts/post_test_exceptions'] 0m40.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m40.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m40.6s DEBUG: No broken symlinks as far as we can find. 0m40.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-divert', '--list'] 0m40.6s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m40.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'dpkg-divert', '--list'] 0m40.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'clean'] 0m40.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpkcoboqet', 'apt-get', 'clean'] 0m40.6s DEBUG: Recording chroot state 0m40.9s INFO: PASS: Installation and purging test. 0m41.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/shm'] 0m41.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/shm'] 0m41.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/console'] 0m41.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/console'] 0m41.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/ptmx'] 0m41.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/ptmx'] 0m41.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts'] 0m41.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/dev/pts'] 0m41.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/proc'] 0m41.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpkcoboqet/proc'] 0m41.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m41.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpkcoboqet'] 0m41.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpkcoboqet 0m41.3s INFO: PASS: All tests. 0m41.3s INFO: piuparts run ends. ret=0 End: 2024-10-11 16:49:27 GMT