Start: 2022-06-26 20:43:16 GMT Package: unicycler Version: 0.4.8+dfsg-2 Installed-Size: 3532 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3 (>= 3~), python3:any, libc6 (>= 2.29), libgcc1 (>= 1:3.0), libstdc++6 (>= 6), zlib1g (>= 1:1.1.4), python3-setuptools, default-jre, bcftools, bowtie2, miniasm, ncbi-blast+, pilon, racon, samtools, spades (>= 3.13.1) 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_0.4.8+dfsg-2_amd64.deb Size: 881684 MD5sum: 4e4d708f5ff3a66228701dd20fa8a151 SHA256: c739f77344ec5066f80edc0ddcab6df11dea7b50d02f9be7beab4ceed948ff84 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d bookworm --no-upgrade-test --apt unicycler=0.4.8+dfsg-2 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.4 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d bookworm --no-upgrade-test --apt unicycler=0.4.8+dfsg-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 4.19.0-20-amd64 #1 SMP Debian 4.19.235-1 (2022-03-17) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpk8vvv53k 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpk8vvv53k 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m1.8s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/proc'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/proc'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/ptmx'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/ptmx'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/console'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/console'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/shm'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/shm'] 0m1.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m1.8s DEBUG: Created policy-rc.d and chmodded it. 0m1.8s DEBUG: Created resolv.conf. 0m1.8s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmpk8vvv53k/tmp/scripts/ 0m1.8s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpk8vvv53k/tmp/scripts/ 0m1.8s INFO: Running scripts post_chroot_unpack 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'update'] 0m4.6s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [130 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8523 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5796 kB] Fetched 14.4 MB in 2s (6931 kB/s) Reading package lists... 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'update'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', '-yf', 'dist-upgrade'] 0m5.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libcap-ng0 libgnutls30 libsystemd0 libudev1 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2005 kB of archives. After this operation, 31.7 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libsystemd0 amd64 251.2-6 [410 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libcap-ng0 amd64 0.7.9-4 [15.1 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgnutls30 amd64 3.7.6-2 [1397 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 251.2-6 [183 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2005 kB in 0s (35.4 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6615 files and directories currently installed.) Preparing to unpack .../libsystemd0_251.2-6_amd64.deb ... Unpacking libsystemd0:amd64 (251.2-6) over (251.2-5) ... Setting up libsystemd0:amd64 (251.2-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6615 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-4_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-4) over (0.7.9-2.2+b2) ... Setting up libcap-ng0:amd64 (0.7.9-4) ... (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 ... 6614 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.6-2_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.6-2) over (3.7.4-2) ... Setting up libgnutls30:amd64 (3.7.6-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6614 files and directories currently installed.) Preparing to unpack .../libudev1_251.2-6_amd64.deb ... Unpacking libudev1:amd64 (251.2-6) over (251.2-5) ... Setting up libudev1:amd64 (251.2-6) ... Processing triggers for libc-bin (2.33-7) ... 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', '-yf', 'dist-upgrade'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.0s DUMP: ddefd5446f9926f1ab9362a79bb9da66 - 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.0s INFO: Running scripts post_setup 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_dummy_users'] 0m6.8s DUMP: useradd warning: dummy1000's uid 1000 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1001's uid 1001 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1002's uid 1002 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1003's uid 1003 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1004's uid 1004 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1005's uid 1005 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1006's uid 1006 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1007's uid 1007 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1008's uid 1008 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1009's uid 1009 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. useradd warning: dummy1010's uid 1010 outside of the SYS_UID_MIN 101 and SYS_UID_MAX 999 range. 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_dummy_users'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_forbid_home'] 0m6.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_forbid_home'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_minimize'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_minimize'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_zz_backports'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_setup_zz_backports'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'clean'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'clean'] 0m6.9s DEBUG: Recording chroot state 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.2s DUMP: install ok installed adduser adduser 3.121 install ok installed apt apt 2.5.0 install ok installed base-files base-files 12.2 install ok installed base-passwd base-passwd 3.5.52 install ok installed bash bash 5.1-6.1 install ok installed bsdutils bsdutils 1:2.38-4 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-8 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.21.8 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.1.0-2 install ok installed gpgv gpgv 2.2.35-2 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.63 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.0 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1+b1 install ok installed libblkid1:amd64 libblkid1 2.38-4 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.33-7 install ok installed libc6:amd64 libc6 2.33-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-4 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.27-1.1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.263 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-4 install ok installed libgcc-s1:amd64 libgcc-s1 12.1.0-2 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1 install ok installed libgnutls30:amd64 libgnutls30 3.7.6-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.45-2 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.2-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1 install ok installed libmount1:amd64 libmount1 2.38-4 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-13 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-13 install ok installed libpam-runtime libpam-runtime 1.4.0-13 install ok installed libpam0g:amd64 libpam0g 1.4.0-13 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-14 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1 install ok installed libselinux1:amd64 libselinux1 3.4-1 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38-4 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libstdc++6:amd64 libstdc++6 12.1.0-2 install ok installed libsystemd0:amd64 libsystemd0 251.2-6 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libudev1:amd64 libudev1 251.2-6 install ok installed libunistring2:amd64 libunistring2 1.0-1 install ok installed libuuid1:amd64 libuuid1 2.38-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.11.1+dfsg1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38-4 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed passwd passwd 1:4.11.1+dfsg1-2 install ok installed perl-base perl-base 5.34.0-4 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.03-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022a-1 install ok installed util-linux util-linux 2.38-4 install ok installed util-linux-extra util-linux-extra 2.38-4 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-4 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-divert', '--list'] 0m7.2s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-divert', '--list'] 0m7.2s INFO: Running scripts is_testable 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/is_testable_uninstallable'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/is_testable_uninstallable'] 0m7.2s INFO: apt-cache does not know about any of the requested packages 0m7.2s INFO: Running scripts pre_test 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_test_exceptions'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_test_exceptions'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_test_root_password'] 0m7.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_test_root_password'] 0m7.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 0m7.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 0m8.0s DEBUG: No broken symlinks as far as we can find. 0m8.0s INFO: Running scripts pre_install 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_database-server'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_database-server'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_exceptions'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_exceptions'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_extras'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_extras'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_log_alternatives'] 0m8.0s 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 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_install_log_alternatives'] 0m8.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 0m8.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 0m8.7s DEBUG: No broken symlinks as far as we can find. 0m8.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-cache', 'policy'] 0m9.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-cache', 'policy'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-cache', 'policy', 'unicycler'] 0m9.5s DUMP: unicycler: Installed: (none) Candidate: 0.4.8+dfsg-2 Version table: 0.4.8+dfsg-2 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-cache', 'policy', 'unicycler'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', '-y', 'install', 'unicycler=0.4.8+dfsg-2'] 1m5.1s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig-config fonts-dejavu-core java-common java-wrappers libapache-pom-java libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.1 libbrotli1 libbsd0 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu71 libjpeg62-turbo libjson-simple-java libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 libllvm14 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl2 libnspr4 libnss3 libpcsclite1 libperl5.34 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtirpc-common libtirpc3 libvulkan1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxdmcp6 libxext6 libxfixes3 libxi6 libxml2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data openjdk-11-jre openjdk-11-jre-headless openssl perl perl-modules-5.34 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.10 python3.10-minimal racon readline-common samtools scala-library sensible-utils spades ucf unzip x11-common Suggested packages: python3-numpy python3-matplotlib texlive-latex-recommended bowtie2-examples libasound2-plugins alsa-utils libxz-java libcommons-lang-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common gdbm-l10n krb5-doc krb5-user picard-tools libjson-simple-doc liblcms2-utils pcscd 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 python3.10-venv python3.10-doc binutils binfmt-support readline-doc cwltool zip Recommended packages: alsa-ucm-conf alsa-topology-conf dbus libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules mesa-vulkan-drivers | vulkan-icd 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: bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig-config fonts-dejavu-core java-common java-wrappers libapache-pom-java libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.1 libbrotli1 libbsd0 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu71 libjpeg62-turbo libjson-simple-java libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 libllvm14 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl2 libnspr4 libnss3 libpcsclite1 libperl5.34 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtirpc-common libtirpc3 libvulkan1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxdmcp6 libxext6 libxfixes3 libxi6 libxml2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data openjdk-11-jre openjdk-11-jre-headless openssl perl perl-modules-5.34 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.10 python3.10-minimal racon readline-common samtools scala-library sensible-utils spades ucf unicycler unzip x11-common 0 upgraded, 164 newly installed, 0 to remove and 0 not upgraded. Need to get 164 MB of archives. After this operation, 650 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.34 all 5.34.0-4 [2850 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-1 [82.9 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-1 [58.6 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.34 amd64 5.34.0-4 [4200 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.34.0-4 [297 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.3-8 [2032 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-minimal amd64 3.10.5-1 [828 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.4.8-1 [109 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.10-minimal amd64 3.10.5-1 [2093 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.10.4-1+b1 [38.9 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 8.0.0 [33.4 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libmpdec3 amd64 2.5.1-2 [87.8 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.3+20220423-2 [133 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.19.2-2+b2 [65.9 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.19.2-2+b2 [114 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-1 [15.7 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.19.2-2+b2 [363 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.19.2-2+b2 [166 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.2-2 [13.8 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.2-2 [83.9 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.1.2-1.2 [73.9 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.1.2-1.2 [168 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.38.5-1 [830 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libpython3.10-stdlib amd64 3.10.5-1 [1704 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 python3.10 amd64 3.10.5-1 [541 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.10.4-1+b1 [22.0 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.10.4-1+b1 [38.4 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.3+20220423-2 [102 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 libprocps8 amd64 2:3.3.17-7+b1 [64.2 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 procps amd64 2:3.3.17-7+b1 [502 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.3-8 [1420 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20211016 [156 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043 [74.0 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-10+b1 [158 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 bamtools amd64 2.5.1+dfsg-10+b1 [181 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b3 [276 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-6 [38.4 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-6 [77.3 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.12+dfsg-2 [227 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.47.0-1+b1 [76.3 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.83.1-2 [352 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.12-1 [71.6 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.2.1-1 [53.4 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.13+ds-2+b1 [397 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 bcftools amd64 1.13-1 [657 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 bowtie2 amd64 2.4.5-1 [1383 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 bwa amd64 0.7.17-7 [212 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.72 [14.5 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-6 [124 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-6 [58.7 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.0-1 [235 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-6 [62.6 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-1 [349 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.2-1 [164 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.37-5 [290 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-3 [420 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config all 2.13.1-4.4 [281 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.13.1-4.4 [350 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.34-1 [113 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.79-1 [1326 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.6.1-2 [38.8 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.6.1-2+b1 [374 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.72.2-2 [1428 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 2.7.4-1+b1 [1469 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.8-1 [60.4 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 openjdk-11-jre-headless amd64 11.0.14.1+1-1 [37.3 MB] Get:76 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.11-72 [10.9 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20190909 [15.7 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.4.0-1 [51.0 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libmd0 amd64 1.0.4-1 [29.6 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.6-1 [114 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.7.5-1 [308 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.7.5-1 [774 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.110-1 [15.4 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.110-1 [44.7 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.0.5-1 [75.8 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.7.5-1 [203 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.14-3 [103 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.14-3 [102 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.14-3 [118 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.14-3 [101 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.14-3 [105 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.14-3 [105 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1 [53.1 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-1 [22.4 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:100 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.110-1 [29.3 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.110-1 [27.5 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.110-1 [30.9 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.187-1 [179 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20210910-1 [97.5 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libicu71 amd64 71.1-3 [9218 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1 [708 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-1+b1 [6997 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libllvm14 amd64 1:14.0.5-1 [21.8 MB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7 [32.3 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7 [52.3 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libvulkan1 amd64 1.3.211.0-1 [118 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.0.5-1 [6931 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.0.5-1 [184 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.4.0-1 [33.7 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.4.0-1 [90.9 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1 [84.0 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 openjdk-11-jre amd64 11.0.14.1+1-1 [175 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.11-72 [1044 B] Get:124 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-26 [171 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 java-wrappers all 0.3 [10.9 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 18-1 [4676 B] Get:127 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 43-1 [10.8 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libcommons-compress-java all 1.21-1 [600 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libedlib1 amd64 1.2.7-3 [17.1 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.1.0-2 [116 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libjson-simple-java all 2.3.0-1 [63.8 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libngs-sdk2 amd64 2.11.2-4 [59.3 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libngs-sdk-dev amd64 2.11.2-4 [103 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libngs-java amd64 2.11.2-4 [80.8 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-2 [27.4 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libsnappy-jni amd64 1.1.8.3-1 [7152 B] Get:140 http://deb.debian.org/debian bookworm/main amd64 libsnappy-java all 1.1.8.3-1 [98.9 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libhtsjdk-java all 2.24.1+dfsg-3 [1655 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.0-2 [272 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.0-2 [127 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.0-2 [161 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libnlopt0 amd64 2.7.1-4+b1 [172 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libspoa7.0.0 amd64 4.0.7+ds-2 [66.7 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libssw0 amd64 1.1-13 [19.7 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 miniasm amd64 0.3+dfsg-3 [29.8 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-9 [3556 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get:153 http://deb.debian.org/debian bookworm/main amd64 scala-library all 2.11.12-5 [9588 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 pilon all 1.24-1 [497 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.9.12-1 [79.9 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.9.12-1 [146 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 59.6.0-1.2 [196 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 python3-joblib all 0.17.0-4 [213 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 python3-setuptools all 59.6.0-1.2 [401 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 python3-yaml amd64 5.4.1-1+b1 [163 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 racon amd64 1.5.0-2 [3113 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 samtools amd64 1.13-4 [570 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 spades amd64 3.15.4+dfsg-1 [8534 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 unicycler amd64 0.4.8+dfsg-2 [882 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 164 MB in 27s (6158 kB/s) Selecting previously unselected package perl-modules-5.34. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6617 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.34_5.34.0-4_all.deb ... Unpacking perl-modules-5.34 (5.34.0-4) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-1_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-1) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../2-libgdbm-compat4_1.23-1_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-1) ... Selecting previously unselected package libperl5.34:amd64. Preparing to unpack .../3-libperl5.34_5.34.0-4_amd64.deb ... Unpacking libperl5.34:amd64 (5.34.0-4) ... Selecting previously unselected package perl. Preparing to unpack .../4-perl_5.34.0-4_amd64.deb ... Unpacking perl (5.34.0-4) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../5-libssl3_3.0.3-8_amd64.deb ... Unpacking libssl3:amd64 (3.0.3-8) ... Selecting previously unselected package libpython3.10-minimal:amd64. Preparing to unpack .../6-libpython3.10-minimal_3.10.5-1_amd64.deb ... Unpacking libpython3.10-minimal:amd64 (3.10.5-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../7-libexpat1_2.4.8-1_amd64.deb ... Unpacking libexpat1:amd64 (2.4.8-1) ... Selecting previously unselected package python3.10-minimal. Preparing to unpack .../8-python3.10-minimal_3.10.5-1_amd64.deb ... Unpacking python3.10-minimal (3.10.5-1) ... Setting up libssl3:amd64 (3.0.3-8) ... Setting up libpython3.10-minimal:amd64 (3.10.5-1) ... Setting up libexpat1:amd64 (2.4.8-1) ... Setting up python3.10-minimal (3.10.5-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8913 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.10.4-1+b1_amd64.deb ... Unpacking python3-minimal (3.10.4-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_8.0.0_all.deb ... Unpacking media-types (8.0.0) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../02-libmpdec3_2.5.1-2_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-2) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../03-libncursesw6_6.3+20220423-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.3+20220423-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.19.2-2+b2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.19.2-2+b2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../05-libk5crypto3_1.19.2-2+b2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.19.2-2+b2) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../06-libkeyutils1_1.6.3-1_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-1) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../07-libkrb5-3_1.19.2-2+b2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.19.2-2+b2) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../08-libgssapi-krb5-2_1.19.2-2+b2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.19.2-2+b2) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../09-libtirpc-common_1.3.2-2_all.deb ... Unpacking libtirpc-common (1.3.2-2) ... Selecting previously unselected package libtirpc3:amd64. Preparing to unpack .../10-libtirpc3_1.3.2-2_amd64.deb ... Unpacking libtirpc3:amd64 (1.3.2-2) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../11-libnsl2_1.3.0-2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../12-readline-common_8.1.2-1.2_all.deb ... Unpacking readline-common (8.1.2-1.2) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../13-libreadline8_8.1.2-1.2_amd64.deb ... Unpacking libreadline8:amd64 (8.1.2-1.2) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../14-libsqlite3-0_3.38.5-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.38.5-1) ... Selecting previously unselected package libpython3.10-stdlib:amd64. Preparing to unpack .../15-libpython3.10-stdlib_3.10.5-1_amd64.deb ... Unpacking libpython3.10-stdlib:amd64 (3.10.5-1) ... Selecting previously unselected package python3.10. Preparing to unpack .../16-python3.10_3.10.5-1_amd64.deb ... Unpacking python3.10 (3.10.5-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.10.4-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.10.4-1+b1) ... Setting up python3-minimal (3.10.4-1+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 ... 9418 files and directories currently installed.) Preparing to unpack .../000-python3_3.10.4-1+b1_amd64.deb ... Unpacking python3 (3.10.4-1+b1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../001-libncurses6_6.3+20220423-2_amd64.deb ... Unpacking libncurses6:amd64 (6.3+20220423-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../002-libprocps8_2%3a3.3.17-7+b1_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-7+b1) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a3.3.17-7+b1_amd64.deb ... Unpacking procps (2:3.3.17-7+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.0.3-8_amd64.deb ... Unpacking openssl (3.0.3-8) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20211016_all.deb ... Unpacking ca-certificates (20211016) ... Selecting previously unselected package ucf. Preparing to unpack .../007-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libbamtools2.5.1:amd64. Preparing to unpack .../008-libbamtools2.5.1_2.5.1+dfsg-10+b1_amd64.deb ... Unpacking libbamtools2.5.1:amd64 (2.5.1+dfsg-10+b1) ... Selecting previously unselected package libjsoncpp25:amd64. Preparing to unpack .../009-libjsoncpp25_1.9.5-4_amd64.deb ... Unpacking libjsoncpp25:amd64 (1.9.5-4) ... Selecting previously unselected package bamtools. Preparing to unpack .../010-bamtools_2.5.1+dfsg-10+b1_amd64.deb ... Unpacking bamtools (2.5.1+dfsg-10+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../011-libbrotli1_1.0.9-2+b3_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b3) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../012-libsasl2-modules-db_2.1.28+dfsg-6_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg-6) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../013-libsasl2-2_2.1.28+dfsg-6_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg-6) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../014-libldap-2.5-0_2.5.12+dfsg-2_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.12+dfsg-2) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../015-libnghttp2-14_1.47.0-1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.47.0-1+b1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../016-libpsl5_0.21.0-1.2_amd64.deb ... Unpacking libpsl5:amd64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../017-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../018-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../019-libcurl3-gnutls_7.83.1-2_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.83.1-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../020-libdeflate0_1.12-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.12-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../021-libhtscodecs2_1.2.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.2.1-1) ... Selecting previously unselected package libhts3:amd64. Preparing to unpack .../022-libhts3_1.13+ds-2+b1_amd64.deb ... Unpacking libhts3:amd64 (1.13+ds-2+b1) ... Selecting previously unselected package bcftools. Preparing to unpack .../023-bcftools_1.13-1_amd64.deb ... Unpacking bcftools (1.13-1) ... Selecting previously unselected package bowtie2. Preparing to unpack .../024-bowtie2_2.4.5-1_amd64.deb ... Unpacking bowtie2 (2.4.5-1) ... Selecting previously unselected package bwa. Preparing to unpack .../025-bwa_0.7.17-7_amd64.deb ... Unpacking bwa (0.7.17-7) ... Selecting previously unselected package java-common. Preparing to unpack .../026-java-common_0.72_all.deb ... Unpacking java-common (0.72) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../027-libavahi-common-data_0.8-6_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.8-6) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../028-libavahi-common3_0.8-6_amd64.deb ... Unpacking libavahi-common3:amd64 (0.8-6) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../029-libdbus-1-3_1.14.0-1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.0-1) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../030-libavahi-client3_0.8-6_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-6) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../031-libcups2_2.4.2-1_amd64.deb ... Unpacking libcups2:amd64 (2.4.2-1) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../032-liblcms2-2_2.12~rc1-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.12~rc1-2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../033-libjpeg62-turbo_1%3a2.1.2-1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.2-1) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../034-libpng16-16_1.6.37-5_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.37-5) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../035-libfreetype6_2.12.1+dfsg-3_amd64.deb ... Unpacking libfreetype6:amd64 (2.12.1+dfsg-3) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../036-fonts-dejavu-core_2.37-2_all.deb ... Unpacking fonts-dejavu-core (2.37-2) ... Selecting previously unselected package fontconfig-config. 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Setting up libkeyutils1:amd64 (1.6.3-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up java-common (0.72) ... Setting up miniasm (0.3+dfsg-3) ... Setting up libyaml-0-2:amd64 (0.2.2-1) ... Setting up libglib2.0-0:amd64 (2.72.2-2) ... No schema files found: doing nothing. Setting up bwa (0.7.17-7) ... Setting up libglvnd0:amd64 (1.4.0-1) ... Setting up libtirpc-common (1.3.2-2) ... Setting up unzip (6.0-26) ... Setting up libbrotli1:amd64 (1.0.9-2+b3) ... Setting up libsqlite3-0:amd64 (3.38.5-1) ... 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) ... Setting up libnghttp2-14:amd64 (1.47.0-1+b1) ... Setting up libngs-sdk2:amd64 (2.11.2-4) ... Setting up libdeflate0:amd64 (1.12-1) ... Setting up scala-library (2.11.12-5) ... Setting up libnlopt0:amd64 (2.7.1-4+b1) ... Setting up libjson-simple-java (2.3.0-1) ... Setting up libgomp1:amd64 (12.1.0-2) ... Setting up perl-modules-5.34 (5.34.0-4) ... Setting up libsnappy1v5:amd64 (1.1.9-2) ... Setting up libkrb5support0:amd64 (1.19.2-2+b2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-6) ... Setting up libasound2-data (1.2.6.1-2) ... Setting up libz3-4:amd64 (4.8.12-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.2-1) ... Setting up libmbedcrypto7:amd64 (2.28.0-2) ... Setting up libx11-data (2:1.7.5-1) ... Setting up libnspr4:amd64 (2:4.34-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libapache-pom-java (18-1) ... Setting up libavahi-common-data:amd64 (0.8-6) ... Setting up libncurses6:amd64 (6.3+20220423-2) ... Setting up libdbus-1-3:amd64 (1.14.0-1) ... Setting up libbamtools2.5.1:amd64 (2.5.1+dfsg-10+b1) ... Setting up libpng16-16:amd64 (1.6.37-5) ... Setting up libspoa7.0.0:amd64 (4.0.7+ds-2) ... Setting up libjsoncpp25:amd64 (1.9.5-4) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libngs-sdk-dev:amd64 (2.11.2-4) ... Setting up libpcsclite1:amd64 (1.9.8-1) ... Setting up libsensors5:amd64 (1:3.6.0-7) ... Setting up libncursesw6:amd64 (6.3+20220423-2) ... Setting up libk5crypto3:amd64 (1.19.2-2+b2) ... Setting up libglapi-mesa:amd64 (22.0.5-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-6) ... Setting up libvulkan1:amd64 (1.3.211.0-1) ... Setting up libgif7:amd64 (5.2.1-2.5) ... Setting up libedlib1:amd64 (1.2.7-3) ... Setting up libmd0:amd64 (1.0.4-1) ... Setting up sensible-utils (0.0.17) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up bamtools (2.5.1+dfsg-10+b1) ... Setting up libasound2:amd64 (1.2.6.1-2+b1) ... Setting up libmpdec3:amd64 (2.5.1-2) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libkrb5-3:amd64 (1.19.2-2+b2) ... Setting up libngs-java:amd64 (2.11.2-4) ... Setting up openssl (3.0.3-8) ... Setting up libbsd0:amd64 (0.11.6-1) ... Setting up libdrm-common (2.4.110-1) ... Setting up libelf1:amd64 (0.187-1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up libssw0:amd64 (1.1-13) ... Setting up readline-common (8.1.2-1.2) ... Setting up libxml2:amd64 (2.9.14+dfsg-1) ... Setting up libprocps8:amd64 (2:3.3.17-7+b1) ... Setting up libgdbm6:amd64 (1.23-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.14-3) ... Setting up libxcb-xfixes0:amd64 (1.14-3) ... Setting up java-wrappers (0.3) ... Setting up libmbedx509-1:amd64 (2.28.0-2) ... Setting up libmbedtls14:amd64 (2.28.0-2) ... Setting up libxcb-glx0:amd64 (1.14-3) ... Setting up libedit2:amd64 (3.1-20210910-1) ... Setting up libreadline8:amd64 (8.1.2-1.2) ... Setting up libcommons-parent-java (43-1) ... Setting up libavahi-common3:amd64 (0.8-6) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libnss3:amd64 (2:3.79-1) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libldap-2.5-0:amd64 (2.5.12+dfsg-2) ... Setting up libxcb-present0:amd64 (1.14-3) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libfreetype6:amd64 (2.12.1+dfsg-3) ... Setting up libxcb-sync1:amd64 (1.14-3) ... Setting up racon (1.5.0-2) ... Setting up libgssapi-krb5-2:amd64 (1.19.2-2+b2) ... Setting up libgdbm-compat4:amd64 (1.23-1) ... Setting up ucf (3.0043) ... Setting up libxcb-dri2-0:amd64 (1.14-3) ... Setting up libllvm14:amd64 (1:14.0.5-1) ... Setting up libdrm2:amd64 (2.4.110-1) ... Setting up procps (2:3.3.17-7+b1) ... Setting up libx11-6:amd64 (2:1.7.5-1) ... Setting up libharfbuzz0b:amd64 (2.7.4-1+b1) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libavahi-client3:amd64 (0.8-6) ... Setting up libdrm-amdgpu1:amd64 (2.4.110-1) ... Setting up libtirpc3:amd64 (1.3.2-2) ... Setting up libxcb-dri3-0:amd64 (1.14-3) ... Setting up libx11-xcb1:amd64 (2:1.7.5-1) ... Setting up libperl5.34:amd64 (5.34.0-4) ... Setting up libdrm-nouveau2:amd64 (2.4.110-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libcommons-compress-java (1.21-1) ... Setting up libdrm-radeon1:amd64 (2.4.110-1) ... Setting up fontconfig-config (2.13.1-4.4) ... Setting up libgl1-mesa-dri:amd64 (22.0.5-1) ... Setting up libxext6:amd64 (2:1.3.4-1) ... Setting up libcurl3-gnutls:amd64 (7.83.1-2) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up perl (5.34.0-4) ... Setting up libxfixes3:amd64 (1:6.0.0-1) ... Setting up libcups2:amd64 (2.4.2-1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libfontconfig1:amd64 (2.13.1-4.4) ... Setting up libhtsjdk-java (2.24.1+dfsg-3) ... Setting up libhts3:amd64 (1.13+ds-2+b1) ... Setting up libglx-mesa0:amd64 (22.0.5-1) ... Setting up libxi6:amd64 (2:1.8-1) ... Setting up libglx0:amd64 (1.4.0-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up bcftools (1.13-1) ... Setting up samtools (1.13-4) ... Setting up libpython3.10-stdlib:amd64 (3.10.5-1) ... Setting up libgl1:amd64 (1.4.0-1) ... Setting up libpython3-stdlib:amd64 (3.10.4-1+b1) ... Setting up python3.10 (3.10.5-1) ... Setting up python3 (3.10.4-1+b1) ... Setting up bowtie2 (2.4.5-1) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up python3-lib2to3 (3.9.12-1) ... Setting up python3-pkg-resources (59.6.0-1.2) ... Setting up python3-distutils (3.9.12-1) ... Setting up python3-setuptools (59.6.0-1.2) ... Setting up python3-joblib (0.17.0-4) ... Setting up python3-yaml (5.4.1-1+b1) ... Setting up spades (3.15.4+dfsg-1) ... Setting up default-jre-headless (2:1.11-72) ... Setting up openjdk-11-jre-headless:amd64 (11.0.14.1+1-1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jre:amd64 (11.0.14.1+1-1) ... Setting up default-jre (2:1.11-72) ... Setting up pilon (1.24-1) ... Setting up unicycler (0.4.8+dfsg-2) ... Setting up ca-certificates-java (20190909) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Processing triggers for libc-bin (2.33-7) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', '-y', 'install', 'unicycler=0.4.8+dfsg-2'] 1m5.1s INFO: Running scripts post_install 1m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_install_log_alternatives'] 1m5.1s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=procps: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --remove w /usr/bin/w.procps LOG-ALTERNATIVES: dpkg=perl: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --remove rename /usr/bin/prename LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/java java /usr/lib/jvm/java-11-openjdk-amd64/bin/java 1111 --slave /usr/share/man/man1/java.1.gz java.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/java.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/jjs jjs /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs 1111 --slave /usr/share/man/man1/jjs.1.gz jjs.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/jjs.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/keytool keytool /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool 1111 --slave /usr/share/man/man1/keytool.1.gz keytool.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/keytool.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/rmid rmid /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid 1111 --slave /usr/share/man/man1/rmid.1.gz rmid.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/rmid.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/rmiregistry rmiregistry /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry 1111 --slave /usr/share/man/man1/rmiregistry.1.gz rmiregistry.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/rmiregistry.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/pack200 pack200 /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 1111 --slave /usr/share/man/man1/pack200.1.gz pack200.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/pack200.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/unpack200 unpack200 /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 1111 --slave /usr/share/man/man1/unpack200.1.gz unpack200.1.gz /usr/lib/jvm/java-11-openjdk-amd64/man/man1/unpack200.1.gz LOG-ALTERNATIVES: dpkg=openjdk-11-jre-headless: piuparts=unicycler=0.4.8+dfsg-2: /usr/bin/update-alternatives --install /usr/bin/jexec jexec /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec 1111 --slave /usr/share/binfmts/jar jexec-binfmt /usr/lib/jvm/java-11-openjdk-amd64/lib/jar.binfmt 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_install_log_alternatives'] 1m5.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m5.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m6.8s ERROR: WARN: Broken symlinks: /usr/lib/jvm/java-11-openjdk-amd64/lib/libatk-wrapper.so -> ../../../x86_64-linux-gnu/jni/libatk-wrapper.so (openjdk-11-jre:amd64) /usr/lib/jvm/java-11-openjdk-amd64/lib/security/blacklisted.certs -> /etc/java-11-openjdk/security/blacklisted.certs (openjdk-11-jre-headless:amd64) 1m7.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', '-ac', '--ignore-obsolete'] 1m10.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', '-ac', '--ignore-obsolete'] 1m10.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m10.5s DUMP: 0.15.2 1m10.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m10.5s INFO: Running adequate version 0.15.2 now. 1m10.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'unicycler'] 1m10.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'unicycler'] 1m10.6s INFO: Running scripts pre_remove 1m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_exceptions'] 1m13.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/pre_remove_exceptions'] 1m13.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m13.1s DUMP: install ok installed adduser adduser 3.121 install ok installed apt apt 2.5.0 install ok installed bamtools bamtools 2.5.1+dfsg-10+b1 install ok installed base-files base-files 12.2 install ok installed base-passwd base-passwd 3.5.52 install ok installed bash bash 5.1-6.1 install ok installed bcftools bcftools 1.13-1 install ok installed bowtie2 bowtie2 2.4.5-1 install ok installed bsdutils bsdutils 1:2.38-4 install ok installed bwa bwa 0.7.17-7 install ok installed ca-certificates ca-certificates 20211016 install ok installed ca-certificates-java ca-certificates-java 20190909 install ok installed coreutils coreutils 8.32-4.1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-8 install ok installed debconf debconf 1.5.79 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.2 install ok installed default-jre default-jre 2:1.11-72 install ok installed default-jre-headless default-jre-headless 2:1.11-72 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.21.8 install ok installed e2fsprogs e2fsprogs 1.46.5-2 install ok installed findutils findutils 4.9.0-3 install ok installed fontconfig-config fontconfig-config 2.13.1-4.4 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-2 install ok installed gcc-12-base:amd64 gcc-12-base 12.1.0-2 install ok installed gpgv gpgv 2.2.35-2 install ok installed grep grep 3.7-1 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.63 install ok installed java-common java-common 0.72 install ok installed java-wrappers java-wrappers 0.3 install ok installed libacl1:amd64 libacl1 2.3.1-1 install ok installed libapache-pom-java libapache-pom-java 18-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.0 install ok installed libasound2:amd64 libasound2 1.2.6.1-2+b1 install ok installed libasound2-data libasound2-data 1.2.6.1-2 install ok installed libattr1:amd64 libattr1 1:2.5.1-1 install ok installed libaudit-common libaudit-common 1:3.0.7-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1+b1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-6 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-6 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-6 install ok installed libbamtools2.5.1:amd64 libbamtools2.5.1 2.5.1+dfsg-10+b1 install ok installed libblkid1:amd64 libblkid1 2.38-4 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b3 install ok installed libbsd0:amd64 libbsd0 0.11.6-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5 install ok installed libc-bin libc-bin 2.33-7 install ok installed libc6:amd64 libc6 2.33-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-4 install ok installed libcap2:amd64 libcap2 1:2.44-1 install ok installed libcom-err2:amd64 libcom-err2 1.46.5-2 install ok installed libcommons-compress-java libcommons-compress-java 1.21-1 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 43-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.27-1.1 install ok installed libcups2:amd64 libcups2 2.4.2-1 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.83.1-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.9 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.0-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.263 install ok installed libdeflate0:amd64 libdeflate0 1.12-1 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.110-1 install ok installed libdrm-common libdrm-common 2.4.110-1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.110-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.110-1 install ok installed libdrm2:amd64 libdrm2 2.4.110-1 install ok installed libedit2:amd64 libedit2 3.1-20210910-1 install ok installed libedlib1:amd64 libedlib1 1.2.7-3 install ok installed libelf1:amd64 libelf1 0.187-1 install ok installed libexpat1:amd64 libexpat1 2.4.8-1 install ok installed libext2fs2:amd64 libext2fs2 1.46.5-2 install ok installed libffi8:amd64 libffi8 3.4.2-4 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-4.4 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-3 install ok installed libgcc-s1:amd64 libgcc-s1 12.1.0-2 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-2 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-1 install ok installed libgdbm6:amd64 libgdbm6 1.23-1 install ok installed libgif7:amd64 libgif7 5.2.1-2.5 install ok installed libgl1:amd64 libgl1 1.4.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 22.0.5-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 22.0.5-1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.72.2-2 install ok installed libglvnd0:amd64 libglvnd0 1.4.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 22.0.5-1 install ok installed libglx0:amd64 libglx0 1.4.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1 install ok installed libgnutls30:amd64 libgnutls30 3.7.6-2 install ok installed libgomp1:amd64 libgomp1 12.1.0-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.45-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.19.2-2+b2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 2.7.4-1+b1 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libhts3:amd64 libhts3 1.13+ds-2+b1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.2.1-1 install ok installed libhtsjdk-java libhtsjdk-java 2.24.1+dfsg-3 install ok installed libicu71:amd64 libicu71 71.1-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.2-2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.2-1 install ok installed libjson-simple-java libjson-simple-java 2.3.0-1 install ok installed libjsoncpp25:amd64 libjsoncpp25 1.9.5-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.19.2-2+b2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-1 install ok installed libkrb5-3:amd64 libkrb5-3 1.19.2-2+b2 install ok installed libkrb5support0:amd64 libkrb5support0 1.19.2-2+b2 install ok installed liblcms2-2:amd64 liblcms2-2 2.12~rc1-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.12+dfsg-2 install ok installed libllvm14:amd64 libllvm14 1:14.0.5-1 install ok installed liblmdb0:amd64 liblmdb0 0.9.24-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.0-2 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.0-2 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.0-2 install ok installed libmd0:amd64 libmd0 1.0.4-1 install ok installed libmount1:amd64 libmount1 2.38-4 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-2 install ok installed libncurses6:amd64 libncurses6 6.3+20220423-2 install ok installed libncursesw6:amd64 libncursesw6 6.3+20220423-2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.47.0-1+b1 install ok installed libngs-java:amd64 libngs-java 2.11.2-4 install ok installed libngs-sdk-dev:amd64 libngs-sdk-dev 2.11.2-4 install ok installed libngs-sdk2:amd64 libngs-sdk2 2.11.2-4 install ok installed libnlopt0:amd64 libnlopt0 2.7.1-4+b1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnspr4:amd64 libnspr4 2:4.34-1 install ok installed libnss3:amd64 libnss3 2:3.79-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-13 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-13 install ok installed libpam-runtime libpam-runtime 1.4.0-13 install ok installed libpam0g:amd64 libpam0g 1.4.0-13 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-14 install ok installed libpcsclite1:amd64 libpcsclite1 1.9.8-1 install ok installed libperl5.34:amd64 libperl5.34 5.34.0-4 install ok installed libpng16-16:amd64 libpng16-16 1.6.37-5 install ok installed libprocps8:amd64 libprocps8 2:3.3.17-7+b1 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.10.4-1+b1 install ok installed libpython3.10-minimal:amd64 libpython3.10-minimal 3.10.5-1 install ok installed libpython3.10-stdlib:amd64 libpython3.10-stdlib 3.10.5-1 install ok installed libreadline8:amd64 libreadline8 8.1.2-1.2 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-6 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-6 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1 install ok installed libselinux1:amd64 libselinux1 3.4-1 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1 install ok installed libsensors-config libsensors-config 1:3.6.0-7 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-7 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38-4 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 1.1.9-2 install ok installed libspoa7.0.0:amd64 libspoa7.0.0 4.0.7+ds-2 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.38.5-1 install ok installed libss2:amd64 libss2 1.46.5-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.3-8 install ok installed libssw0:amd64 libssw0 1.1-13 install ok installed libstdc++6:amd64 libstdc++6 12.1.0-2 install ok installed libsystemd0:amd64 libsystemd0 251.2-6 install ok installed libtasn1-6:amd64 libtasn1-6 4.18.0-4 install ok installed libtinfo6:amd64 libtinfo6 6.3+20220423-2 install ok installed libtirpc-common libtirpc-common 1.3.2-2 install ok installed libtirpc3:amd64 libtirpc3 1.3.2-2 install ok installed libudev1:amd64 libudev1 251.2-6 install ok installed libunistring2:amd64 libunistring2 1.0-1 install ok installed libuuid1:amd64 libuuid1 2.38-4 install ok installed libvulkan1:amd64 libvulkan1 1.3.211.0-1 install ok installed libx11-6:amd64 libx11-6 2:1.7.5-1 install ok installed libx11-data libx11-data 2:1.7.5-1 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.7.5-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.14-3 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.14-3 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.14-3 install ok installed libxcb-present0:amd64 libxcb-present0 1.14-3 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.14-3 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.14-3 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.14-3 install ok installed libxcb1:amd64 libxcb1 1.14-3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-1 install ok installed libxi6:amd64 libxi6 2:1.8-1 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1 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 0.2.2-1 install ok installed libz3-4:amd64 libz3-4 4.8.12-1+b1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg-1 install ok installed login login 1:4.11.1+dfsg1-2 install ok installed logsave logsave 1.46.5-2 install ok installed lsb-base lsb-base 11.2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 8.0.0 install ok installed miniasm miniasm 0.3+dfsg-3 install ok installed mount mount 2.38-4 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-3+b1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-9 install ok installed ncurses-base ncurses-base 6.3+20220423-2 install ok installed ncurses-bin ncurses-bin 6.3+20220423-2 install ok installed openjdk-11-jre:amd64 openjdk-11-jre 11.0.14.1+1-1 install ok installed openjdk-11-jre-headless:amd64 openjdk-11-jre-headless 11.0.14.1+1-1 install ok installed openssl openssl 3.0.3-8 install ok installed passwd passwd 1:4.11.1+dfsg1-2 install ok installed perl perl 5.34.0-4 install ok installed perl-base perl-base 5.34.0-4 install ok installed perl-modules-5.34 perl-modules-5.34 5.34.0-4 install ok installed pilon pilon 1.24-1 install ok installed procps procps 2:3.3.17-7+b1 install ok installed python3 python3 3.10.4-1+b1 install ok installed python3-distutils python3-distutils 3.9.12-1 install ok installed python3-joblib python3-joblib 0.17.0-4 install ok installed python3-lib2to3 python3-lib2to3 3.9.12-1 install ok installed python3-minimal python3-minimal 3.10.4-1+b1 install ok installed python3-pkg-resources python3-pkg-resources 59.6.0-1.2 install ok installed python3-setuptools python3-setuptools 59.6.0-1.2 install ok installed python3-yaml python3-yaml 5.4.1-1+b1 install ok installed python3.10 python3.10 3.10.5-1 install ok installed python3.10-minimal python3.10-minimal 3.10.5-1 install ok installed racon racon 1.5.0-2 install ok installed readline-common readline-common 8.1.2-1.2 install ok installed samtools samtools 1.13-4 install ok installed scala-library scala-library 2.11.12-5 install ok installed sed sed 4.8-1 install ok installed sensible-utils sensible-utils 0.0.17 install ok installed spades spades 3.15.4+dfsg-1 install ok installed sysvinit-utils sysvinit-utils 3.03-1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022a-1 install ok installed ucf ucf 3.0043 install ok installed unicycler unicycler 0.4.8+dfsg-2 install ok installed unzip unzip 6.0-26 install ok installed util-linux util-linux 2.38-4 install ok installed util-linux-extra util-linux-extra 2.38-4 install ok installed x11-common x11-common 1:7.7+23 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-4 1m13.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m13.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'remove', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.1:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', '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', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu71:amd64', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'libllvm14:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.34:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvulkan1: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-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+-', 'ncbi-data', 'openjdk-11-jre:amd64', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.34', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.10', 'python3.10-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'sensible-utils', 'spades', 'ucf', 'unzip', 'x11-common', 'unicycler'] 1m15.6s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bamtools bcftools bowtie2 bwa ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig-config fonts-dejavu-core java-common java-wrappers libapache-pom-java libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbamtools2.5.1 libbrotli1 libbsd0 libcommons-compress-java libcommons-jexl2-java libcommons-lang-java libcommons-logging-java libcommons-parent-java libcups2 libcurl3-gnutls libdbus-1-3 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libedlib1 libelf1 libexpat1 libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libicu71 libjpeg62-turbo libjson-simple-java libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 libllvm14 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmpdec3 libncurses6 libncursesw6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnlopt0 libnsl2 libnspr4 libnss3 libpcsclite1 libperl5.34 libpng16-16 libprocps8 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsnappy-java libsnappy-jni libsnappy1v5 libspoa7.0.0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtirpc-common libtirpc3 libvulkan1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxdmcp6 libxext6 libxfixes3 libxi6 libxml2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libyaml-0-2 libz3-4 media-types miniasm ncbi-blast+ ncbi-data openjdk-11-jre openjdk-11-jre-headless openssl perl perl-modules-5.34 pilon procps python3 python3-distutils python3-joblib python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3-yaml python3.10 python3.10-minimal racon readline-common samtools scala-library sensible-utils spades ucf unicycler unzip x11-common 0 upgraded, 0 newly installed, 164 to remove and 0 not upgraded. After this operation, 650 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 ... 13412 files and directories currently installed.) Removing unicycler (0.4.8+dfsg-2) ... Removing spades (3.15.4+dfsg-1) ... Removing bamtools (2.5.1+dfsg-10+b1) ... Removing bcftools (1.13-1) ... Removing bowtie2 (2.4.5-1) ... Removing bwa (0.7.17-7) ... Removing pilon (1.24-1) ... Removing default-jre (2:1.11-72) ... Removing openjdk-11-jre:amd64 (11.0.14.1+1-1) ... Removing default-jre-headless (2:1.11-72) ... Removing java-wrappers (0.3) ... Removing libhtsjdk-java (2.24.1+dfsg-3) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-logging-java (1.2-3) ... Removing libcommons-lang-java (2.6-10) ... Removing libbamtools2.5.1:amd64 (2.5.1+dfsg-10+b1) ... Removing samtools (1.13-4) ... Removing libhts3:amd64 (1.13+ds-2+b1) ... Removing libcurl3-gnutls:amd64 (7.83.1-2) ... Removing libgl1:amd64 (1.4.0-1) ... Removing libglx0:amd64 (1.4.0-1) ... Removing libglx-mesa0:amd64 (22.0.5-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libgl1-mesa-dri:amd64 (22.0.5-1) ... Removing libllvm14:amd64 (1:14.0.5-1) ... Removing libedit2:amd64 (3.1-20210910-1) ... Removing libcommons-compress-java (1.21-1) ... Removing libdeflate0:amd64 (1.12-1) ... Removing libdrm-amdgpu1:amd64 (2.4.110-1) ... Removing libdrm-radeon1:amd64 (2.4.110-1) ... Removing libdrm-nouveau2:amd64 (2.4.110-1) ... Removing libdrm2:amd64 (2.4.110-1) ... Removing libdrm-common (2.4.110-1) ... Removing racon (1.5.0-2) ... Removing libedlib1:amd64 (1.2.7-3) ... Removing libelf1:amd64 (0.187-1) ... Removing python3-yaml (5.4.1-1+b1) ... Removing python3-setuptools (59.6.0-1.2) ... Removing python3-distutils (3.9.12-1) ... Removing ncbi-blast+ (2.12.0+ds-3+b1) ... Removing python3-joblib (0.17.0-4) ... Removing python3-pkg-resources (59.6.0-1.2) ... Removing perl (5.34.0-4) ... Removing libperl5.34:amd64 (5.34.0-4) ... Removing libgdbm-compat4:amd64 (1.23-1) ... Removing libgdbm6:amd64 (1.23-1) ... Removing libgif7:amd64 (5.2.1-2.5) ... Removing libglapi-mesa:amd64 (22.0.5-1) ... Removing libglvnd0:amd64 (1.4.0-1) ... Removing libgomp1:amd64 (12.1.0-2) ... Removing libhtscodecs2:amd64 (1.2.1-1) ... Removing libxml2:amd64 (2.9.14+dfsg-1) ... Removing libicu71:amd64 (71.1-3) ... Removing libjson-simple-java (2.3.0-1) ... Removing libjsoncpp25:amd64 (1.9.5-4) ... Removing libldap-2.5-0:amd64 (2.5.12+dfsg-2) ... Removing liblmdb0:amd64 (0.9.24-1) ... Removing libmbedtls14:amd64 (2.28.0-2) ... Removing libmbedx509-1:amd64 (2.28.0-2) ... Removing libmbedcrypto7:amd64 (2.28.0-2) ... Removing procps (2:3.3.17-7+b1) ... Removing libncurses6:amd64 (6.3+20220423-2) ... Removing libnghttp2-14:amd64 (1.47.0-1+b1) ... Removing libngs-java:amd64 (2.11.2-4) ... Removing libngs-sdk-dev:amd64 (2.11.2-4) ... Removing libngs-sdk2:amd64 (2.11.2-4) ... Removing libnlopt0:amd64 (2.7.1-4+b1) ... Removing libprocps8:amd64 (2:3.3.17-7+b1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-6) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-6) ... Removing libsensors5:amd64 (1:3.6.0-7) ... Removing libsensors-config (1:3.6.0-7) ... Removing libsnappy-java (1.1.8.3-1) ... Removing libsnappy-jni (1.1.8.3-1) ... Removing libsnappy1v5:amd64 (1.1.9-2) ... Removing libspoa7.0.0:amd64 (4.0.7+ds-2) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing libssw0:amd64 (1.1-13) ... Removing libvulkan1:amd64 (1.3.211.0-1) ... Removing libx11-xcb1:amd64 (2:1.7.5-1) ... Removing libxcb-dri2-0:amd64 (1.14-3) ... Removing libxcb-dri3-0:amd64 (1.14-3) ... Removing libxcb-glx0:amd64 (1.14-3) ... Removing libxcb-present0:amd64 (1.14-3) ... Removing libxcb-shm0:amd64 (1.14-3) ... Removing libxcb-sync1:amd64 (1.14-3) ... Removing libxcb-xfixes0:amd64 (1.14-3) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libxi6:amd64 (2:1.8-1) ... Removing libxext6:amd64 (2:1.3.4-1) ... Removing libxfixes3:amd64 (1:6.0.0-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libyaml-0-2:amd64 (0.2.2-1) ... Removing libz3-4:amd64 (4.8.12-1+b1) ... Removing miniasm (0.3+dfsg-3) ... Removing ncbi-data (6.1.20170106+dfsg1-9) ... Removing perl-modules-5.34 (5.34.0-4) ... Removing python3-lib2to3 (3.9.12-1) ... Removing scala-library (2.11.12-5) ... Removing unzip (6.0-26) ... 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 (43-1) ... Removing libapache-pom-java (18-1) ... Removing libx11-6:amd64 (2:1.7.5-1) ... Removing libxcb1:amd64 (1.14-3) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.6-1) ... Removing python3 (3.10.4-1+b1) ... Removing python3.10 (3.10.5-1) ... Removing python3-minimal (3.10.4-1+b1) ... Removing python3.10-minimal (3.10.5-1) ... Removing libpython3-stdlib:amd64 (3.10.4-1+b1) ... Removing libpython3.10-stdlib:amd64 (3.10.5-1) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.2-2) ... Removing libmd0:amd64 (1.0.4-1) ... Removing libmpdec3:amd64 (2.5.1-2) ... Removing libncursesw6:amd64 (6.3+20220423-2) ... Removing libpython3.10-minimal:amd64 (3.10.5-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.1.2-1.2) ... Removing libtirpc-common (1.3.2-2) ... Removing libx11-data (2:1.7.5-1) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing media-types (8.0.0) ... Removing readline-common (8.1.2-1.2) ... Removing openjdk-11-jre-headless:amd64 (11.0.14.1+1-1) ... Removing libfontconfig1:amd64 (2.13.1-4.4) ... Removing fontconfig-config (2.13.1-4.4) ... Removing fonts-dejavu-core (2.37-2) ... Removing java-common (0.72) ... Removing libasound2:amd64 (1.2.6.1-2+b1) ... Removing libasound2-data (1.2.6.1-2) ... Removing libcups2:amd64 (2.4.2-1) ... Removing libavahi-client3:amd64 (0.8-6) ... Removing libavahi-common3:amd64 (0.8-6) ... Removing libavahi-common-data:amd64 (0.8-6) ... Removing libharfbuzz0b:amd64 (2.7.4-1+b1) ... Removing libfreetype6:amd64 (2.12.1+dfsg-3) ... Removing libbrotli1:amd64 (1.0.9-2+b3) ... Removing libdbus-1-3:amd64 (1.14.0-1) ... Removing libexpat1:amd64 (2.4.8-1) ... Removing libglib2.0-0:amd64 (2.72.2-2) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libgssapi-krb5-2:amd64 (1.19.2-2+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.2-1) ... Removing libkrb5-3:amd64 (1.19.2-2+b2) ... Removing libk5crypto3:amd64 (1.19.2-2+b2) ... Removing libkeyutils1:amd64 (1.6.3-1) ... Removing libkrb5support0:amd64 (1.19.2-2+b2) ... Removing liblcms2-2:amd64 (2.12~rc1-2) ... Removing libpcsclite1:amd64 (1.9.8-1) ... Removing libpng16-16:amd64 (1.6.37-5) ... Removing ucf (3.0043) ... Removing sensible-utils (0.0.17) ... Removing ca-certificates-java (20190909) ... Removing ca-certificates (20211016) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libnss3:amd64 (2:3.79-1) ... Removing libnspr4:amd64 (2:4.34-1) ... Removing libsqlite3-0:amd64 (3.38.5-1) ... Removing openssl (3.0.3-8) ... Removing libssl3:amd64 (3.0.3-8) ... Processing triggers for libc-bin (2.33-7) ... 1m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'remove', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.1:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', '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', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu71:amd64', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'libllvm14:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.34:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvulkan1: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-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+-', 'ncbi-data', 'openjdk-11-jre:amd64', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.34', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.10', 'python3.10-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'sensible-utils', 'spades', 'ucf', 'unzip', 'x11-common', 'unicycler'] 1m15.6s INFO: Running scripts post_remove 1m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_remove_exceptions'] 1m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_remove_exceptions'] 1m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.1:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', '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', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu71:amd64', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'libllvm14:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.34:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvulkan1: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-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+', 'ncbi-data', 'openjdk-11-jre:amd64', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.34', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.10', 'python3.10-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'sensible-utils', 'spades', 'ucf', 'unzip', 'x11-common'] 1m16.2s DUMP: 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 (Reading database ... 6709 files and directories currently installed.) Purging configuration files for ca-certificates (20211016) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20190909) ... 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-config (2.13.1-4.4) ... Purging configuration files for fonts-dejavu-core (2.37-2) ... Purging configuration files for java-common (0.72) ... 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 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 libbamtools2.5.1 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 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 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-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 libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 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 (22.0.5-1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.72.2-2) ... 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 (1.19.2-2+b2) ... 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 libicu71 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjson-simple-java 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 libllvm14 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 libmd0 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-sdk-dev which isn't installed dpkg: warning: ignoring request to remove libngs-sdk2 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 libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libperl5.34 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libprocps8 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.10-minimal:amd64 (3.10.5-1) ... dpkg: warning: ignoring request to remove libpython3.10-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed Purging configuration files for libsensors-config (1:3.6.0-7) ... 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 Purging configuration files for libtirpc-common (1.3.2-2) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libvulkan1 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-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 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 libxml2 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 (8.0.0) ... 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+dfsg1-9) ... dpkg: warning: ignoring request to remove openjdk-11-jre which isn't installed Purging configuration files for openjdk-11-jre-headless:amd64 (11.0.14.1+1-1) ... Purging configuration files for openssl (3.0.3-8) ... Purging configuration files for perl (5.34.0-4) ... dpkg: warning: ignoring request to remove perl-modules-5.34 which isn't installed dpkg: warning: ignoring request to remove pilon which isn't installed Purging configuration files for procps (2:3.3.17-7+b1) ... Purging configuration files for python3 (3.10.4-1+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 python3.10 which isn't installed Purging configuration files for python3.10-minimal (3.10.5-1) ... dpkg: warning: ignoring request to remove racon which isn't installed Purging configuration files for readline-common (8.1.2-1.2) ... dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove scala-library which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove spades which isn't installed Purging configuration files for ucf (3.0043) ... Purging configuration files for unzip (6.0-26) ... Purging configuration files for x11-common (1:7.7+23) ... 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', 'bamtools', 'bcftools', 'bowtie2', 'bwa', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'java-common', 'java-wrappers', 'libapache-pom-java', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbamtools2.5.1:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcommons-compress-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libedlib1:amd64', 'libelf1:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', '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', 'libharfbuzz0b:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libhtsjdk-java', 'libicu71:amd64', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'libllvm14:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncurses6:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-sdk-dev:amd64', 'libngs-sdk2:amd64', 'libnlopt0:amd64', 'libnsl2:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.34:amd64', 'libpng16-16:amd64', 'libprocps8:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.10-minimal:amd64', 'libpython3.10-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvulkan1: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-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libyaml-0-2:amd64', 'libz3-4:amd64', 'media-types', 'miniasm', 'ncbi-blast+', 'ncbi-data', 'openjdk-11-jre:amd64', 'openjdk-11-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.34', 'pilon', 'procps', 'python3', 'python3-distutils', 'python3-joblib', 'python3-lib2to3', 'python3-minimal', 'python3-pkg-resources', 'python3-setuptools', 'python3-yaml', 'python3.10', 'python3.10-minimal', 'racon', 'readline-common', 'samtools', 'scala-library', 'sensible-utils', 'spades', 'ucf', 'unzip', 'x11-common'] 1m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', 'unicycler'] 1m16.2s DUMP: dpkg: warning: ignoring request to remove unicycler which isn't installed 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', 'unicycler'] 1m16.2s INFO: Running scripts post_purge 1m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_purge_exceptions'] 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_purge_exceptions'] 1m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', '--pending'] 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--purge', '--pending'] 1m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--remove', '--pending'] 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg', '--remove', '--pending'] 1m16.2s INFO: Running scripts post_test 1m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_test_exceptions'] 1m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'tmp/scripts/post_test_exceptions'] 1m16.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m16.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m16.9s DEBUG: No broken symlinks as far as we can find. 1m16.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-divert', '--list'] 1m16.9s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 1m16.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'dpkg-divert', '--list'] 1m16.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'clean'] 1m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k', 'apt-get', 'clean'] 1m17.0s DEBUG: Recording chroot state 1m17.3s INFO: PASS: Installation and purging test. 1m17.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/shm'] 1m17.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/shm'] 1m17.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/console'] 1m17.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/console'] 1m17.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/ptmx'] 1m17.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/ptmx'] 1m17.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts'] 1m17.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/dev/pts'] 1m17.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/proc'] 1m17.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k/proc'] 1m17.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m17.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpk8vvv53k'] 1m17.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpk8vvv53k 1m17.8s INFO: PASS: All tests. 1m17.8s INFO: piuparts run ends. ret=0 End: 2022-06-26 20:44:34 GMT