Start: 2024-08-22 09:10:38 GMT [bookworm] Package: bioperl-run Version: 1.7.3-9 Installed-Size: 93 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-9), libbio-tools-run-alignment-clustalw-perl, libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless, hyphy-pt | hyphy-mpi Recommends: amap-align, bedtools, ncbi-blast+-legacy, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, ncoils, phylip, phyml, primer3, probalign, probcons, raxml, samtools, sim4, t-coffee, tigr-glimmer, wise, lagan, pal2nal, pftools Suggests: gmap, fasta3, trnascan-se Description: BioPerl wrappers: scripts Homepage: https://metacpan.org/release/BioPerl-Run Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-9_all.deb Size: 40556 MD5sum: 3f537a76dbd5fae673fcfb43bd34c6d8 SHA256: 38e044bf99449c8c54cf82786d775f7263124504767b2939890fd68a189ffb23 [bookworm-next] Package: bioperl-run Version: 1.7.3-9 Installed-Size: 93 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-9), libbio-tools-run-alignment-clustalw-perl, libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless, hyphy-pt | hyphy-mpi Recommends: amap-align, bedtools, ncbi-blast+-legacy, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, ncoils, phylip, phyml, primer3, probalign, probcons, raxml, samtools, sim4, t-coffee, tigr-glimmer, wise, lagan, pal2nal, pftools Suggests: gmap, fasta3, trnascan-se Description: BioPerl wrappers: scripts Homepage: https://metacpan.org/release/BioPerl-Run Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-9_all.deb Size: 40556 MD5sum: 3f537a76dbd5fae673fcfb43bd34c6d8 SHA256: 38e044bf99449c8c54cf82786d775f7263124504767b2939890fd68a189ffb23 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt bioperl-run=1.7.3-9 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.4~202408201642~1.4.3-11-g36a88c35 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt bioperl-run=1.7.3-9 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-32-amd64 #1 SMP Debian 5.10.223-1 (2024-08-10) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp0v1xfw0o 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp0v1xfw0o 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp0v1xfw0o/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'update'] 0m1.2s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'update'] 0m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-yf', 'dist-upgrade'] 0m1.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-yf', 'dist-upgrade'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s DUMP: 913e17be84ed63a3110ce3137c1d003a - 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s INFO: Running scripts post_setup 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_dummy_users'] 0m2.9s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_dummy_users'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_forbid_home'] 0m2.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_forbid_home'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.0s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_minimize'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_minimize'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_zz_backports'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_setup_zz_backports'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.0s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u7 install ok installed libc6:amd64 libc6 2.36-9+deb12u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.26-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.26-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.0s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat 0m3.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m3.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m3.4s INFO: Running scripts is_testable 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/is_testable_uninstallable'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/is_testable_uninstallable'] 0m3.4s INFO: Running scripts pre_test 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_test_exceptions'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_test_exceptions'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_test_root_password'] 0m3.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_test_root_password'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m3.7s DUMP: Package: bioperl-run Version: 1.7.3-9 Installed-Size: 93 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-9), libbio-tools-run-alignment-clustalw-perl, libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless, hyphy-pt | hyphy-mpi Recommends: amap-align, bedtools, ncbi-blast+-legacy, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, ncoils, phylip, phyml, primer3, probalign, probcons, raxml, samtools, sim4, t-coffee, tigr-glimmer, wise, lagan, pal2nal, pftools Suggests: gmap, fasta3, trnascan-se Description-en: BioPerl wrappers: scripts Contains scripts from the BioPerl-Run package. This package will also install all wrappable applications packaged in Debian. The ones that are not Free are "Suggested" by this package. Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Homepage: https://metacpan.org/release/BioPerl-Run Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-9_all.deb Size: 40556 MD5sum: 3f537a76dbd5fae673fcfb43bd34c6d8 SHA256: 38e044bf99449c8c54cf82786d775f7263124504767b2939890fd68a189ffb23 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m3.7s INFO: apt-cache knows about the following packages: bioperl-run 0m3.7s INFO: Running scripts pre_install 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m3.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m3.8s DUMP: bioperl-run: Installed: (none) Candidate: 1.7.3-9 Version table: 1.7.3-9 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run'] 0m21.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bioperl ca-certificates ca-certificates-java clustalw default-jdk-headless default-jre-headless fontconfig-config fonts-dejavu-core hyphy-common hyphy-pt java-common libalgorithm-diff-perl libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-alignment-clustalw-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libbrotli1 libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libcups2 libcurl3-gnutls libdata-stag-perl libdbus-1-3 libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0ldbl libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnghttp2-14 libnspr4 libnss3 libpcsclite1 libperl5.36 libpng16-16 libpsl5 libregexp-ipv6-perl librtmp1 libsasl2-2 libsasl2-modules-db libsoap-lite-perl libsqlite3-0 libssh2-1 libssl3 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-17-jdk-headless openjdk-17-jre-headless openssl perl perl-modules-5.36 perl-openssl-defaults sensible-utils ucf Suggested packages: groff-base gmap fasta3 trnascan-se clustalx seaview default-jre libasound2-plugins alsa-utils libxml-sax-expatxs-perl cups-common gdbm-l10n low-memory-monitor krb5-doc krb5-user libdata-dump-perl liblcms2-utils libcrypt-ssleay-perl pcscd libapache2-mod-perl2 libmime-lite-perl libnet-jabber-perl libsub-name-perl libbusiness-isbn-perl libauthen-ntlm-perl libunicode-map8-perl libunicode-string-perl xml-twig-tools openjdk-17-demo openjdk-17-source 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 debhelper Recommended packages: perl-doc libcache-cache-perl libdbi-perl libgd-gd2-perl libapache-dbi-perl libyaml-perl libace-perl liblist-moreutils-perl libset-scalar-perl amap-align bedtools ncbi-blast+-legacy bowtie bwa emboss exonerate hmmer infernal kalign maq mafft muscle ncoils phylip phyml primer3 probalign probcons raxml samtools sim4 t-coffee tigr-glimmer wise lagan pal2nal pftools libalgorithm-diff-xs-perl alsa-ucm-conf alsa-topology-conf libalgorithm-munkres-perl libarray-compare-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-tableextract-perl libpostscript-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl libxml-sax-writer-perl perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl dbus libfcgi-bin libglib2.0-data shared-mime-info xdg-user-dirs libhtml-format-perl krb5-locales libldap-common libauthen-sasl-perl publicsuffix libsasl2-modules libxmlrpc-lite-perl libtext-csv-xs-perl libdata-dump-perl libhtml-form-perl libxml-sax-expat-perl libtext-iconv-perl libtie-ixhash-perl The following NEW packages will be installed: bioperl bioperl-run ca-certificates ca-certificates-java clustalw default-jdk-headless default-jre-headless fontconfig-config fonts-dejavu-core hyphy-common hyphy-pt java-common libalgorithm-diff-perl libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-alignment-clustalw-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libbrotli1 libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libcups2 libcurl3-gnutls libdata-stag-perl libdbus-1-3 libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0ldbl libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnghttp2-14 libnspr4 libnss3 libpcsclite1 libperl5.36 libpng16-16 libpsl5 libregexp-ipv6-perl librtmp1 libsasl2-2 libsasl2-modules-db libsoap-lite-perl libsqlite3-0 libssh2-1 libssl3 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-17-jdk-headless openjdk-17-jre-headless openssl perl perl-modules-5.36 perl-openssl-defaults sensible-utils ucf 0 upgraded, 139 newly installed, 0 to remove and 0 not upgraded. Need to get 159 MB of archives. After this operation, 436 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 netbase all 6.4 [12.8 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.13-1~deb12u1 [2022 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.13-1~deb12u1 [1418 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:16 http://deb.debian.org/debian bookworm/main amd64 libdevel-stacktrace-perl all 2.0400-2 [26.8 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libtest-deep-perl all 1.204-1 [52.9 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libcapture-tiny-perl all 0.48-2 [24.6 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libtest-differences-perl all 0.69-1 [18.9 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 bioperl all 1.7.8-1 [246 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libio-pty-perl amd64 1:1.17-1 [34.9 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libipc-run-perl all 20220807.0-1 [104 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 libfile-sort-perl all 1.01-3 [21.3 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libbio-perl-run-perl all 1.7.3-9 [605 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 clustalw amd64 2.1+lgpl-7 [282 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libbio-tools-run-alignment-clustalw-perl all 1.7.4-3 [24.6 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libfile-slurp-tiny-perl all 0.004-2 [7592 B] Get:35 http://deb.debian.org/debian bookworm/main amd64 libtree-dagnode-perl all 1.32-1 [61.7 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get:37 http://deb.debian.org/debian bookworm/main amd64 liburi-perl all 5.17-1 [90.4 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libhtml-tagset-perl all 3.20-6 [11.7 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libhtml-parser-perl amd64 3.81-1 [101 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libclone-perl amd64 0.46-1 [13.7 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libhttp-message-perl all 6.44-1 [81.7 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B] Get:52 http://deb.debian.org/debian bookworm/main amd64 libnet-ssleay-perl amd64 1.92-2+b1 [317 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libio-socket-ssl-perl all 2.081-2 [219 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libnet-http-perl all 6.22-1 [25.3 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libwww-perl all 6.68-1 [186 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libxml-parser-perl amd64 2.46-4 [201 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libxml-perl all 0.08-4 [93.0 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libxml-regexp-perl all 0.04-1.1 [7500 B] Get:63 http://deb.debian.org/debian bookworm/main amd64 libxml-dom-perl all 1.46-2 [152 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libxml-xpathengine-perl all 0.14-2 [33.5 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libxml-dom-xpath-perl all 0.14-4 [9352 B] Get:66 http://deb.debian.org/debian bookworm/main amd64 libbio-featureio-perl all 1.6.905-2 [53.2 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libxml-twig-perl all 1:3.52-2 [181 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libxml-writer-perl all 0.900-2 [26.8 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libbio-variation-perl all 1.7.5-3 [72.6 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libbio-cluster-perl all 1.7.3-6 [53.3 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libtest-requiresinternet-perl all 0.05-4 [6864 B] Get:75 http://deb.debian.org/debian bookworm/main amd64 libbio-asn1-entrezgene-perl all 1.730-2 [48.6 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libtext-csv-perl all 2.02-2 [110 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libxml-simple-perl all 2.25-2 [69.8 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libbio-eutilities-perl all 1.77-2 [124 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libbio-tools-run-remoteblast-perl all 1.7.3-3 [17.5 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libclass-inspector-perl all 1.36-3 [17.5 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libfcgi0ldbl amd64 2.4.2-2 [26.1 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libfcgi-perl amd64 0.82+ds-2 [25.2 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libhttp-daemon-perl all 6.16-1 [23.5 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libio-sessiondata-perl all 1.03-3 [6316 B] Get:88 http://deb.debian.org/debian bookworm/main amd64 libio-stringy-perl all 2.111-3 [56.5 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libconvert-binhex-perl all 1.125-3 [27.4 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libnet-smtp-ssl-perl all 1.04-2 [6548 B] Get:91 http://deb.debian.org/debian bookworm/main amd64 libmailtools-perl all 2.21-2 [95.6 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libmime-tools-perl all 5.510-1 [213 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libtask-weaken-perl all 1.06-2 [9364 B] Get:94 http://deb.debian.org/debian bookworm/main amd64 libsoap-lite-perl all 1.27-3 [239 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20230710~deb12u1 [11.9 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.74 [6388 B] Get:97 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.10-1~deb12u1 [201 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:104 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3+deb12u5 [245 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.87.1-1 [1331 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1+b1 [362 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-2 [49.7 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.11+9-1~deb12u1 [43.7 MB] Get:125 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-74 [2936 B] Get:126 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jdk-headless amd64 17.0.11+9-1~deb12u1 [71.4 MB] Get:127 http://deb.debian.org/debian bookworm/main amd64 default-jdk-headless amd64 2:1.17-74 [1108 B] Get:128 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-10+deb12u6 [385 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 hyphy-common all 2.5.47+dfsg-1 [586 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 hyphy-pt amd64 2.5.47+dfsg-1 [1487 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 bioperl-run all 1.7.3-9 [40.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 159 MB in 1s (222 MB/s) Selecting previously unselected package perl-modules-5.36. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6093 files and directories currently installed.) Preparing to unpack .../000-perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../001-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../002-libgdbm-compat4_1.23-3_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-3) ... Selecting previously unselected package libperl5.36:amd64. Preparing to unpack .../003-libperl5.36_5.36.0-7+deb12u1_amd64.deb ... Unpacking libperl5.36:amd64 (5.36.0-7+deb12u1) ... Selecting previously unselected package perl. Preparing to unpack .../004-perl_5.36.0-7+deb12u1_amd64.deb ... Unpacking perl (5.36.0-7+deb12u1) ... Selecting previously unselected package netbase. Preparing to unpack .../005-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../007-libssl3_3.0.13-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u1) ... Selecting previously unselected package openssl. Preparing to unpack .../008-openssl_3.0.13-1~deb12u1_amd64.deb ... Unpacking openssl (3.0.13-1~deb12u1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../009-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package ucf. Preparing to unpack .../010-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../011-libio-string-perl_1.08-4_all.deb ... Unpacking libio-string-perl (1.08-4) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../012-libdata-stag-perl_0.14-3_all.deb ... Unpacking libdata-stag-perl (0.14-3) ... Selecting previously unselected package libbio-perl-perl. Preparing to unpack .../013-libbio-perl-perl_1.7.8-1_all.deb ... Unpacking libbio-perl-perl (1.7.8-1) ... Selecting previously unselected package libclass-data-inheritable-perl. Preparing to unpack .../014-libclass-data-inheritable-perl_0.08-3_all.deb ... Unpacking libclass-data-inheritable-perl (0.08-3) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../015-libdevel-stacktrace-perl_2.0400-2_all.deb ... Unpacking libdevel-stacktrace-perl (2.0400-2) ... Selecting previously unselected package libexception-class-perl. Preparing to unpack .../016-libexception-class-perl_1.45-1_all.deb ... Unpacking libexception-class-perl (1.45-1) ... Selecting previously unselected package libtest-deep-perl. Preparing to unpack .../017-libtest-deep-perl_1.204-1_all.deb ... Unpacking libtest-deep-perl (1.204-1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../018-libcapture-tiny-perl_0.48-2_all.deb ... Unpacking libcapture-tiny-perl (0.48-2) ... Selecting previously unselected package libalgorithm-diff-perl. Preparing to unpack .../019-libalgorithm-diff-perl_1.201-1_all.deb ... Unpacking libalgorithm-diff-perl (1.201-1) ... Selecting previously unselected package libtext-diff-perl. Preparing to unpack .../020-libtext-diff-perl_1.45-2_all.deb ... Unpacking libtext-diff-perl (1.45-2) ... Selecting previously unselected package libtest-differences-perl. Preparing to unpack .../021-libtest-differences-perl_0.69-1_all.deb ... Unpacking libtest-differences-perl (0.69-1) ... Selecting previously unselected package libsub-uplevel-perl. Preparing to unpack .../022-libsub-uplevel-perl_0.2800-3_all.deb ... Unpacking libsub-uplevel-perl (0.2800-3) ... Selecting previously unselected package libtest-exception-perl. Preparing to unpack .../023-libtest-exception-perl_0.43-3_all.deb ... Unpacking libtest-exception-perl (0.43-3) ... Selecting previously unselected package libtest-warn-perl. Preparing to unpack .../024-libtest-warn-perl_0.37-2_all.deb ... Unpacking libtest-warn-perl (0.37-2) ... Selecting previously unselected package libtest-most-perl. Preparing to unpack .../025-libtest-most-perl_0.38-1_all.deb ... Unpacking libtest-most-perl (0.38-1) ... Selecting previously unselected package bioperl. Preparing to unpack .../026-bioperl_1.7.8-1_all.deb ... Unpacking bioperl (1.7.8-1) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../027-libio-pty-perl_1%3a1.17-1_amd64.deb ... Unpacking libio-pty-perl (1:1.17-1) ... Selecting previously unselected package libipc-run-perl. Preparing to unpack .../028-libipc-run-perl_20220807.0-1_all.deb ... Unpacking libipc-run-perl (20220807.0-1) ... Selecting previously unselected package libfile-sort-perl. Preparing to unpack .../029-libfile-sort-perl_1.01-3_all.deb ... Unpacking libfile-sort-perl (1.01-3) ... Selecting previously unselected package libbio-perl-run-perl. Preparing to unpack .../030-libbio-perl-run-perl_1.7.3-9_all.deb ... Unpacking libbio-perl-run-perl (1.7.3-9) ... Selecting previously unselected package clustalw. Preparing to unpack .../031-clustalw_2.1+lgpl-7_amd64.deb ... Unpacking clustalw (2.1+lgpl-7) ... Selecting previously unselected package libbio-tools-run-alignment-clustalw-perl. Preparing to unpack .../032-libbio-tools-run-alignment-clustalw-perl_1.7.4-3_all.deb ... Unpacking libbio-tools-run-alignment-clustalw-perl (1.7.4-3) ... Selecting previously unselected package libfile-slurp-tiny-perl. Preparing to unpack .../033-libfile-slurp-tiny-perl_0.004-2_all.deb ... Unpacking libfile-slurp-tiny-perl (0.004-2) ... Selecting previously unselected package libtree-dagnode-perl. Preparing to unpack .../034-libtree-dagnode-perl_1.32-1_all.deb ... Unpacking libtree-dagnode-perl (1.32-1) ... Selecting previously unselected package libregexp-ipv6-perl. Preparing to unpack .../035-libregexp-ipv6-perl_0.03-3_all.deb ... Unpacking libregexp-ipv6-perl (0.03-3) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../036-liburi-perl_5.17-1_all.deb ... Unpacking liburi-perl (5.17-1) ... Selecting previously unselected package libencode-locale-perl. Preparing to unpack .../037-libencode-locale-perl_1.05-3_all.deb ... Unpacking libencode-locale-perl (1.05-3) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../038-libtimedate-perl_2.3300-2_all.deb ... Unpacking libtimedate-perl (2.3300-2) ... Selecting previously unselected package libhttp-date-perl. Preparing to unpack .../039-libhttp-date-perl_6.05-2_all.deb ... Unpacking libhttp-date-perl (6.05-2) ... Selecting previously unselected package libfile-listing-perl. Preparing to unpack .../040-libfile-listing-perl_6.15-1_all.deb ... Unpacking libfile-listing-perl (6.15-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../041-libhtml-tagset-perl_3.20-6_all.deb ... Unpacking libhtml-tagset-perl (3.20-6) ... Selecting previously unselected package libhtml-parser-perl:amd64. Preparing to unpack .../042-libhtml-parser-perl_3.81-1_amd64.deb ... Unpacking libhtml-parser-perl:amd64 (3.81-1) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../043-libhtml-tree-perl_5.07-3_all.deb ... Unpacking libhtml-tree-perl (5.07-3) ... Selecting previously unselected package libclone-perl:amd64. Preparing to unpack .../044-libclone-perl_0.46-1_amd64.deb ... Unpacking libclone-perl:amd64 (0.46-1) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../045-libio-html-perl_1.004-3_all.deb ... Unpacking libio-html-perl (1.004-3) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../046-liblwp-mediatypes-perl_6.04-2_all.deb ... Unpacking liblwp-mediatypes-perl (6.04-2) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../047-libhttp-message-perl_6.44-1_all.deb ... Unpacking libhttp-message-perl (6.44-1) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../048-libhttp-cookies-perl_6.10-1_all.deb ... Unpacking libhttp-cookies-perl (6.10-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../049-libhttp-negotiate-perl_6.01-2_all.deb ... Unpacking libhttp-negotiate-perl (6.01-2) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../050-perl-openssl-defaults_7+b1_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (7+b1) ... Selecting previously unselected package libnet-ssleay-perl:amd64. Preparing to unpack .../051-libnet-ssleay-perl_1.92-2+b1_amd64.deb ... Unpacking libnet-ssleay-perl:amd64 (1.92-2+b1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../052-libio-socket-ssl-perl_2.081-2_all.deb ... Unpacking libio-socket-ssl-perl (2.081-2) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../053-libnet-http-perl_6.22-1_all.deb ... Unpacking libnet-http-perl (6.22-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../054-liblwp-protocol-https-perl_6.10-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.10-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../055-libtry-tiny-perl_0.31-2_all.deb ... Unpacking libtry-tiny-perl (0.31-2) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../056-libwww-robotrules-perl_6.02-1_all.deb ... Unpacking libwww-robotrules-perl (6.02-1) ... Selecting previously unselected package libwww-perl. Preparing to unpack .../057-libwww-perl_6.68-1_all.deb ... Unpacking libwww-perl (6.68-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../058-libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package libxml-parser-perl. Preparing to unpack .../059-libxml-parser-perl_2.46-4_amd64.deb ... Unpacking libxml-parser-perl (2.46-4) ... Selecting previously unselected package libxml-perl. Preparing to unpack .../060-libxml-perl_0.08-4_all.deb ... Unpacking libxml-perl (0.08-4) ... Selecting previously unselected package libxml-regexp-perl. Preparing to unpack .../061-libxml-regexp-perl_0.04-1.1_all.deb ... Unpacking libxml-regexp-perl (0.04-1.1) ... Selecting previously unselected package libxml-dom-perl. Preparing to unpack .../062-libxml-dom-perl_1.46-2_all.deb ... Unpacking libxml-dom-perl (1.46-2) ... Selecting previously unselected package libxml-xpathengine-perl. Preparing to unpack .../063-libxml-xpathengine-perl_0.14-2_all.deb ... Unpacking libxml-xpathengine-perl (0.14-2) ... Selecting previously unselected package libxml-dom-xpath-perl. Preparing to unpack .../064-libxml-dom-xpath-perl_0.14-4_all.deb ... Unpacking libxml-dom-xpath-perl (0.14-4) ... Selecting previously unselected package libbio-featureio-perl. Preparing to unpack .../065-libbio-featureio-perl_1.6.905-2_all.deb ... Unpacking libbio-featureio-perl (1.6.905-2) ... Selecting previously unselected package libxml-twig-perl. Preparing to unpack .../066-libxml-twig-perl_1%3a3.52-2_all.deb ... Unpacking libxml-twig-perl (1:3.52-2) ... Selecting previously unselected package libxml-writer-perl. Preparing to unpack .../067-libxml-writer-perl_0.900-2_all.deb ... Unpacking libxml-writer-perl (0.900-2) ... Selecting previously unselected package libbio-variation-perl. Preparing to unpack .../068-libbio-variation-perl_1.7.5-3_all.deb ... Unpacking libbio-variation-perl (1.7.5-3) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../069-libxml-namespacesupport-perl_1.12-2_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-2) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../070-libxml-sax-base-perl_1.09-3_all.deb ... Unpacking libxml-sax-base-perl (1.09-3) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../071-libxml-sax-perl_1.02+dfsg-3_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-3) ... Selecting previously unselected package libbio-cluster-perl. Preparing to unpack .../072-libbio-cluster-perl_1.7.3-6_all.deb ... Unpacking libbio-cluster-perl (1.7.3-6) ... Selecting previously unselected package libtest-requiresinternet-perl. Preparing to unpack .../073-libtest-requiresinternet-perl_0.05-4_all.deb ... Unpacking libtest-requiresinternet-perl (0.05-4) ... Selecting previously unselected package libbio-asn1-entrezgene-perl. Preparing to unpack .../074-libbio-asn1-entrezgene-perl_1.730-2_all.deb ... Unpacking libbio-asn1-entrezgene-perl (1.730-2) ... Selecting previously unselected package libtext-csv-perl. Preparing to unpack .../075-libtext-csv-perl_2.02-2_all.deb ... Unpacking libtext-csv-perl (2.02-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../076-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../077-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../078-libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b1_amd64.deb ... Unpacking libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../079-libxml-simple-perl_2.25-2_all.deb ... Unpacking libxml-simple-perl (2.25-2) ... Selecting previously unselected package libbio-eutilities-perl. Preparing to unpack .../080-libbio-eutilities-perl_1.77-2_all.deb ... Unpacking libbio-eutilities-perl (1.77-2) ... Selecting previously unselected package libbio-tools-run-remoteblast-perl. Preparing to unpack .../081-libbio-tools-run-remoteblast-perl_1.7.3-3_all.deb ... Unpacking libbio-tools-run-remoteblast-perl (1.7.3-3) ... Selecting previously unselected package libclass-inspector-perl. Preparing to unpack .../082-libclass-inspector-perl_1.36-3_all.deb ... Unpacking libclass-inspector-perl (1.36-3) ... Selecting previously unselected package libfcgi0ldbl:amd64. Preparing to unpack .../083-libfcgi0ldbl_2.4.2-2_amd64.deb ... Unpacking libfcgi0ldbl:amd64 (2.4.2-2) ... Selecting previously unselected package libfcgi-perl. Preparing to unpack .../084-libfcgi-perl_0.82+ds-2_amd64.deb ... Unpacking libfcgi-perl (0.82+ds-2) ... Selecting previously unselected package libhttp-daemon-perl. Preparing to unpack .../085-libhttp-daemon-perl_6.16-1_all.deb ... Unpacking libhttp-daemon-perl (6.16-1) ... Selecting previously unselected package libio-sessiondata-perl. Preparing to unpack .../086-libio-sessiondata-perl_1.03-3_all.deb ... Unpacking libio-sessiondata-perl (1.03-3) ... Selecting previously unselected package libio-stringy-perl. Preparing to unpack .../087-libio-stringy-perl_2.111-3_all.deb ... Unpacking libio-stringy-perl (2.111-3) ... Selecting previously unselected package libconvert-binhex-perl. Preparing to unpack .../088-libconvert-binhex-perl_1.125-3_all.deb ... Unpacking libconvert-binhex-perl (1.125-3) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../089-libnet-smtp-ssl-perl_1.04-2_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-2) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../090-libmailtools-perl_2.21-2_all.deb ... Unpacking libmailtools-perl (2.21-2) ... Selecting previously unselected package libmime-tools-perl. Preparing to unpack .../091-libmime-tools-perl_5.510-1_all.deb ... Unpacking libmime-tools-perl (5.510-1) ... Selecting previously unselected package libtask-weaken-perl. Preparing to unpack .../092-libtask-weaken-perl_1.06-2_all.deb ... Unpacking libtask-weaken-perl (1.06-2) ... Selecting previously unselected package libsoap-lite-perl. Preparing to unpack .../093-libsoap-lite-perl_1.27-3_all.deb ... Unpacking libsoap-lite-perl (1.27-3) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../094-ca-certificates-java_20230710~deb12u1_all.deb ... Unpacking ca-certificates-java (20230710~deb12u1) ... Selecting previously unselected package java-common. Preparing to unpack .../095-java-common_0.74_all.deb ... Unpacking java-common (0.74) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../096-libavahi-common-data_0.8-10_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.8-10) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../097-libavahi-common3_0.8-10_amd64.deb ... Unpacking libavahi-common3:amd64 (0.8-10) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../098-libdbus-1-3_1.14.10-1~deb12u1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../099-libavahi-client3_0.8-10_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-10) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../100-libkrb5support0_1.20.1-2+deb12u1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../101-libk5crypto3_1.20.1-2+deb12u1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../102-libkeyutils1_1.6.3-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../103-libkrb5-3_1.20.1-2+deb12u1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../104-libgssapi-krb5-2_1.20.1-2+deb12u1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../105-libcups2_2.4.2-3+deb12u5_amd64.deb ... Unpacking libcups2:amd64 (2.4.2-3+deb12u5) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../106-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../107-libpng16-16_1.6.39-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libfreetype6:amd64. 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Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../114-libnspr4_2%3a4.35-1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.35-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../115-libsqlite3-0_3.40.1-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.40.1-2) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../116-libnss3_2%3a3.87.1-1_amd64.deb ... Unpacking libnss3:amd64 (2:3.87.1-1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../117-libasound2-data_1.2.8-1_all.deb ... Unpacking libasound2-data (1.2.8-1) ... Selecting previously unselected package libasound2:amd64. Preparing to unpack .../118-libasound2_1.2.8-1+b1_amd64.deb ... Unpacking libasound2:amd64 (1.2.8-1+b1) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../119-libglib2.0-0_2.74.6-2+deb12u3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../120-libgraphite2-3_1.3.14-1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../121-libharfbuzz0b_6.0.0+dfsg-3_amd64.deb ... Unpacking libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../122-libpcsclite1_1.9.9-2_amd64.deb ... Unpacking libpcsclite1:amd64 (1.9.9-2) ... Selecting previously unselected package openjdk-17-jre-headless:amd64. Preparing to unpack .../123-openjdk-17-jre-headless_17.0.11+9-1~deb12u1_amd64.deb ... Unpacking openjdk-17-jre-headless:amd64 (17.0.11+9-1~deb12u1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../124-default-jre-headless_2%3a1.17-74_amd64.deb ... Unpacking default-jre-headless (2:1.17-74) ... Selecting previously unselected package openjdk-17-jdk-headless:amd64. 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Preparing to unpack .../130-libnghttp2-14_1.52.0-1+deb12u1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../131-libpsl5_0.21.2-1_amd64.deb ... Unpacking libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../132-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 .../133-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 .../134-libcurl3-gnutls_7.88.1-10+deb12u6_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../135-libgomp1_12.2.0-14_amd64.deb ... Unpacking libgomp1:amd64 (12.2.0-14) ... Selecting previously unselected package hyphy-common. Preparing to unpack .../136-hyphy-common_2.5.47+dfsg-1_all.deb ... Unpacking hyphy-common (2.5.47+dfsg-1) ... Selecting previously unselected package hyphy-pt. Preparing to unpack .../137-hyphy-pt_2.5.47+dfsg-1_amd64.deb ... Unpacking hyphy-pt (2.5.47+dfsg-1) ... Selecting previously unselected package bioperl-run. Preparing to unpack .../138-bioperl-run_1.7.3-9_all.deb ... Unpacking bioperl-run (1.7.3-9) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up liblcms2-2:amd64 (2.14-2) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up libpsl5:amd64 (0.21.2-1) ... Setting up libicu72:amd64 (72.1-3) ... Setting up java-common (0.74) ... Setting up libfcgi0ldbl:amd64 (2.4.2-2) ... Setting up libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... No schema files found: doing nothing. Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libssl3:amd64 (3.0.13-1~deb12u1) ... Setting up libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Setting up perl-openssl-defaults:amd64 (7+b1) ... Setting up hyphy-common (2.5.47+dfsg-1) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up libasound2-data (1.2.8-1) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libavahi-common-data:amd64 (0.8-10) ... Setting up libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libpcsclite1:amd64 (1.9.9-2) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libasound2:amd64 (1.2.8-1+b1) ... Setting up clustalw (2.1+lgpl-7) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up netbase (6.4) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up openssl (3.0.13-1~deb12u1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libavahi-common3:amd64 (0.8-10) ... Setting up libnss3:amd64 (2:3.87.1-1) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libfreetype6:amd64 (2.12.1+dfsg-5+deb12u3) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up ucf (3.0043+nmu1) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up ca-certificates-java (20230710~deb12u1) ... No JRE found. Skipping Java certificates setup. Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Setting up hyphy-pt (2.5.47+dfsg-1) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up libclass-data-inheritable-perl (0.08-3) ... Setting up libxml-xpathengine-perl (0.14-2) ... Setting up libxml-writer-perl (0.900-2) ... Setting up libio-html-perl (1.004-3) ... Setting up libcapture-tiny-perl (0.48-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up libcups2:amd64 (2.4.2-3+deb12u5) ... Setting up libfcgi-perl (0.82+ds-2) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up libdevel-stacktrace-perl (2.0400-2) ... Setting up liburi-perl (5.17-1) ... Setting up libfile-sort-perl (1.01-3) ... Setting up libtext-csv-perl (2.02-2) ... Setting up libnet-ssleay-perl:amd64 (1.92-2+b1) ... Setting up libio-sessiondata-perl (1.03-3) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libtask-weaken-perl (1.06-2) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libtest-requiresinternet-perl (0.05-4) ... Setting up libclass-inspector-perl (1.36-3) ... Setting up libtest-deep-perl (1.204-1) ... Setting up libxml-regexp-perl (0.04-1.1) ... Setting up libio-pty-perl (1:1.17-1) ... Setting up libclone-perl:amd64 (0.46-1) ... Setting up libalgorithm-diff-perl (1.201-1) ... Setting up libio-stringy-perl (2.111-3) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libhtml-tagset-perl (3.20-6) ... Setting up libfile-slurp-tiny-perl (0.004-2) ... Setting up libconvert-binhex-perl (1.125-3) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libtry-tiny-perl (0.31-2) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up libnet-http-perl (6.22-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libexception-class-perl (1.45-1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-4) ... Setting up libtest-exception-perl (0.43-3) ... Setting up libtext-diff-perl (1.45-2) ... Setting up libipc-run-perl (20220807.0-1) ... Setting up openjdk-17-jre-headless:amd64 (17.0.11+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libwww-robotrules-perl (6.02-1) ... Setting up libtree-dagnode-perl (1.32-1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up libhtml-parser-perl:amd64 (3.81-1) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libio-socket-ssl-perl (2.081-2) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libbio-perl-run-perl (1.7.3-9) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libtest-differences-perl (0.69-1) ... Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libbio-tools-run-alignment-clustalw-perl (1.7.4-3) ... Setting up libnet-smtp-ssl-perl (1.04-2) ... Setting up libmailtools-perl (2.21-2) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libhttp-daemon-perl (6.16-1) ... Setting up libtest-most-perl (0.38-1) ... Setting up libmime-tools-perl (5.510-1) ... Setting up libxml-simple-perl (2.25-2) ... Setting up bioperl (1.7.8-1) ... Setting up libwww-perl (6.68-1) ... Setting up libbio-tools-run-remoteblast-perl (1.7.3-3) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up libxml-parser-perl (2.46-4) ... Setting up libxml-twig-perl (1:3.52-2) ... Setting up libbio-variation-perl (1.7.5-3) ... Setting up libxml-perl (0.08-4) ... Setting up libsoap-lite-perl (1.27-3) ... Setting up libbio-cluster-perl (1.7.3-6) ... Setting up libxml-dom-perl (1.46-2) ... Setting up libbio-asn1-entrezgene-perl (1.730-2) ... Setting up libxml-dom-xpath-perl (0.14-4) ... Setting up libbio-eutilities-perl (1.77-2) ... Setting up libbio-featureio-perl (1.6.905-2) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... Processing triggers for ca-certificates-java (20230710~deb12u1) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068_2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:E-Tugra_Global_Root_CA_ECC_v3.pem Adding debian:E-Tugra_Global_Root_CA_RSA_v3.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-17-jdk-headless:amd64 (17.0.11+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.17-74) ... Setting up default-jdk-headless (2:1.17-74) ... Setting up bioperl-run (1.7.3-9) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20230710~deb12u1) ... done. 0m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run'] 0m21.9s INFO: Running scripts post_install 0m21.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m21.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m22.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m22.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp0v1xfw0o to bookworm-next 0m22.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main deb http://security.debian.org bookworm-security main deb http://deb.debian.org/debian/ bookworm-updates main deb http://deb.debian.org/debian/ bookworm-proposed-updates main 0m22.4s INFO: Running scripts pre_distupgrade 0m22.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m22.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m22.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'update'] 0m24.0s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Get:2 http://deb.debian.org/debian bookworm-updates InRelease [55.4 kB] Get:3 http://security.debian.org bookworm-security InRelease [48.0 kB] Get:4 http://deb.debian.org/debian bookworm-proposed-updates InRelease [59.5 kB] Get:5 http://security.debian.org bookworm-security/main amd64 Packages [176 kB] Get:6 http://security.debian.org bookworm-security/main Translation-en [106 kB] Get:7 http://deb.debian.org/debian bookworm-updates/main amd64 Packages [13.8 kB] Get:8 http://deb.debian.org/debian bookworm-updates/main Translation-en [16.0 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages [108 kB] Get:10 http://deb.debian.org/debian bookworm-proposed-updates/main Translation-en [62.5 kB] Fetched 645 kB in 1s (788 kB/s) Reading package lists... 0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'update'] 0m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-yf', 'dist-upgrade'] 0m30.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 libcups2 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libssl3 libsystemd0 libudev1 openjdk-17-jdk-headless openjdk-17-jre-headless openssl 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 123 MB of archives. After this operation, 82.9 kB of additional disk space will be used. Get:1 http://security.debian.org bookworm-security/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:2 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc6 amd64 2.36-9+deb12u8 [2754 kB] Get:3 http://security.debian.org bookworm-security/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:4 http://security.debian.org bookworm-security/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:5 http://security.debian.org bookworm-security/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:6 http://security.debian.org bookworm-security/main amd64 openjdk-17-jdk-headless amd64 17.0.12+7-2~deb12u1 [71.4 MB] Get:7 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc-bin amd64 2.36-9+deb12u8 [608 kB] Get:8 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libsystemd0 amd64 252.29-1~deb12u1 [332 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libudev1 amd64 252.29-1~deb12u1 [108 kB] Get:10 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libssl3 amd64 3.0.13-1~deb12u2 [2023 kB] Get:11 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libcups2 amd64 2.4.2-3+deb12u7 [245 kB] Get:12 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 openssl amd64 3.0.13-1~deb12u2 [1421 kB] Get:13 http://security.debian.org bookworm-security/main amd64 openjdk-17-jre-headless amd64 17.0.12+7-2~deb12u1 [43.7 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 123 MB in 1s (227 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 ... 13614 files and directories currently installed.) Preparing to unpack .../libc6_2.36-9+deb12u8_amd64.deb ... Unpacking libc6:amd64 (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc6:amd64 (2.36-9+deb12u8) ... (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 ... 13614 files and directories currently installed.) Preparing to unpack .../libc-bin_2.36-9+deb12u8_amd64.deb ... Unpacking libc-bin (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc-bin (2.36-9+deb12u8) ... (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 ... 13614 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.29-1~deb12u1_amd64.deb ... Unpacking libsystemd0:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libsystemd0:amd64 (252.29-1~deb12u1) ... (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 ... 13614 files and directories currently installed.) Preparing to unpack .../libudev1_252.29-1~deb12u1_amd64.deb ... Unpacking libudev1:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libudev1:amd64 (252.29-1~deb12u1) ... (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 ... 13614 files and directories currently installed.) Preparing to unpack .../0-libgssapi-krb5-2_1.20.1-2+deb12u2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../1-libkrb5-3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../2-libkrb5support0_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../3-libk5crypto3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../4-libssl3_3.0.13-1~deb12u2_amd64.deb ... Unpacking libssl3:amd64 (3.0.13-1~deb12u2) over (3.0.13-1~deb12u1) ... Preparing to unpack .../5-libcups2_2.4.2-3+deb12u7_amd64.deb ... Unpacking libcups2:amd64 (2.4.2-3+deb12u7) over (2.4.2-3+deb12u5) ... Preparing to unpack .../6-openjdk-17-jdk-headless_17.0.12+7-2~deb12u1_amd64.deb ... Unpacking openjdk-17-jdk-headless:amd64 (17.0.12+7-2~deb12u1) over (17.0.11+9-1~deb12u1) ... Preparing to unpack .../7-openjdk-17-jre-headless_17.0.12+7-2~deb12u1_amd64.deb ... Unpacking openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) over (17.0.11+9-1~deb12u1) ... Preparing to unpack .../8-openssl_3.0.13-1~deb12u2_amd64.deb ... Unpacking openssl (3.0.13-1~deb12u2) over (3.0.13-1~deb12u1) ... Setting up libssl3:amd64 (3.0.13-1~deb12u2) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Setting up openssl (3.0.13-1~deb12u2) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Setting up libcups2:amd64 (2.4.2-3+deb12u7) ... Setting up openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... Installing new version of config file /etc/java-17-openjdk/jfr/default.jfc ... Installing new version of config file /etc/java-17-openjdk/jfr/profile.jfc ... Installing new version of config file /etc/java-17-openjdk/security/java.security ... Processing triggers for libc-bin (2.36-9+deb12u8) ... Processing triggers for ca-certificates-java (20230710~deb12u1) ... done. Setting up openjdk-17-jdk-headless:amd64 (17.0.12+7-2~deb12u1) ... 0m30.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-yf', 'dist-upgrade'] 0m30.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m30.9s DUMP: 8d734360ea7c957ed98a0e4620f217b3 - 0m30.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m30.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m31.2s DUMP: Package: bioperl-run Version: 1.7.3-9 Installed-Size: 93 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-9), libbio-tools-run-alignment-clustalw-perl, libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless, hyphy-pt | hyphy-mpi Recommends: amap-align, bedtools, ncbi-blast+-legacy, bowtie, bwa, clustalw, emboss, exonerate, hmmer, infernal, kalign, maq, mafft, muscle, ncoils, phylip, phyml, primer3, probalign, probcons, raxml, samtools, sim4, t-coffee, tigr-glimmer, wise, lagan, pal2nal, pftools Suggests: gmap, fasta3, trnascan-se Description-en: BioPerl wrappers: scripts Contains scripts from the BioPerl-Run package. This package will also install all wrappable applications packaged in Debian. The ones that are not Free are "Suggested" by this package. Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Homepage: https://metacpan.org/release/BioPerl-Run Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-9_all.deb Size: 40556 MD5sum: 3f537a76dbd5fae673fcfb43bd34c6d8 SHA256: 38e044bf99449c8c54cf82786d775f7263124504767b2939890fd68a189ffb23 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m31.2s INFO: apt-cache knows about the following packages: bioperl-run 0m31.2s INFO: Running scripts pre_install 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m31.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m31.4s DUMP: bioperl-run: Installed: 1.7.3-9 Candidate: 1.7.3-9 Version table: *** 1.7.3-9 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m31.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m31.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run'] 0m31.9s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version (1.7.3-9). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run'] 0m31.9s INFO: Running scripts post_install 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m31.9s INFO: Running scripts post_distupgrade 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_exceptions'] 0m31.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_exceptions'] 0m31.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m32.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m32.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m32.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m32.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m33.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m33.5s INFO: Running scripts pre_install 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_database-server'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_exceptions'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_extras'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m33.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m33.6s DUMP: bioperl-run: Installed: 1.7.3-9 Candidate: 1.7.3-9 Version table: *** 1.7.3-9 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m33.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-cache', 'policy', 'bioperl-run'] 0m33.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run=1.7.3-9'] 0m34.0s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version (1.7.3-9). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', '-y', 'install', 'bioperl-run=1.7.3-9'] 0m34.0s INFO: Running scripts post_install 0m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_install_exceptions'] 0m34.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m34.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m34.8s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m34.8s INFO: /bin converted to /usr/bin by /usr merge 0m34.8s INFO: /lib converted to /usr/lib by /usr merge 0m34.8s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m34.8s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m34.8s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m34.8s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m34.8s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m34.8s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m34.8s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m34.8s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m34.8s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m34.8s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m34.8s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m34.8s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m34.8s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m34.8s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m34.8s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m34.8s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m34.8s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m34.8s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m34.8s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m34.8s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m34.8s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m34.8s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m34.8s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m34.8s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m34.8s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m34.8s INFO: /sbin converted to /usr/sbin by /usr merge 0m35.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', '-ac', '--ignore-obsolete'] 0m37.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', '-ac', '--ignore-obsolete'] 0m37.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.3s DUMP: 0.15.6 0m37.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m37.3s INFO: Running adequate version 0.15.6 now. 0m37.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'bioperl-run'] 0m37.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'bioperl-run'] 0m37.5s INFO: Running scripts pre_remove 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m37.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_exceptions'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/pre_remove_exceptions'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m39.7s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bioperl bioperl 1.7.8-1 install ok installed bioperl-run bioperl-run 1.7.3-9 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed ca-certificates ca-certificates 20230311 install ok installed ca-certificates-java ca-certificates-java 20230710~deb12u1 install ok installed clustalw clustalw 2.1+lgpl-7 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed default-jdk-headless default-jdk-headless 2:1.17-74 install ok installed default-jre-headless default-jre-headless 2:1.17-74 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed fontconfig-config fontconfig-config 2.14.1-4 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-6 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed hyphy-common hyphy-common 2.5.47+dfsg-1 install ok installed hyphy-pt hyphy-pt 2.5.47+dfsg-1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed java-common java-common 0.74 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libalgorithm-diff-perl libalgorithm-diff-perl 1.201-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libasound2:amd64 libasound2 1.2.8-1+b1 install ok installed libasound2-data libasound2-data 1.2.8-1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-10 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-10 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-10 install ok installed libbio-asn1-entrezgene-perl libbio-asn1-entrezgene-perl 1.730-2 install ok installed libbio-cluster-perl libbio-cluster-perl 1.7.3-6 install ok installed libbio-eutilities-perl libbio-eutilities-perl 1.77-2 install ok installed libbio-featureio-perl libbio-featureio-perl 1.6.905-2 install ok installed libbio-perl-perl libbio-perl-perl 1.7.8-1 install ok installed libbio-perl-run-perl libbio-perl-run-perl 1.7.3-9 install ok installed libbio-tools-run-alignment-clustalw-perl libbio-tools-run-alignment-clustalw-perl 1.7.4-3 install ok installed libbio-tools-run-remoteblast-perl libbio-tools-run-remoteblast-perl 1.7.3-3 install ok installed libbio-variation-perl libbio-variation-perl 1.7.5-3 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcapture-tiny-perl libcapture-tiny-perl 0.48-2 install ok installed libclass-data-inheritable-perl libclass-data-inheritable-perl 0.08-3 install ok installed libclass-inspector-perl libclass-inspector-perl 1.36-3 install ok installed libclone-perl:amd64 libclone-perl 0.46-1 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libconvert-binhex-perl libconvert-binhex-perl 1.125-3 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libcups2:amd64 libcups2 2.4.2-3+deb12u7 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.88.1-10+deb12u6 install ok installed libdata-stag-perl libdata-stag-perl 0.14-3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.10-1~deb12u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libdevel-stacktrace-perl libdevel-stacktrace-perl 2.0400-2 install ok installed libencode-locale-perl libencode-locale-perl 1.05-3 install ok installed libexception-class-perl libexception-class-perl 1.45-1 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libfcgi-perl libfcgi-perl 0.82+ds-2 install ok installed libfcgi0ldbl:amd64 libfcgi0ldbl 2.4.2-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-listing-perl libfile-listing-perl 6.15-1 install ok installed libfile-slurp-tiny-perl libfile-slurp-tiny-perl 0.004-2 install ok installed libfile-sort-perl libfile-sort-perl 1.01-3 install ok installed libfontconfig1:amd64 libfontconfig1 2.14.1-4 install ok installed libfreetype6:amd64 libfreetype6 2.12.1+dfsg-5+deb12u3 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.74.6-2+deb12u3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgomp1:amd64 libgomp1 12.2.0-14 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-2+deb12u2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 6.0.0+dfsg-3 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libhtml-parser-perl:amd64 libhtml-parser-perl 3.81-1 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.20-6 install ok installed libhtml-tree-perl libhtml-tree-perl 5.07-3 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.10-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.16-1 install ok installed libhttp-date-perl libhttp-date-perl 6.05-2 install ok installed libhttp-message-perl libhttp-message-perl 6.44-1 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.01-2 install ok installed libicu72:amd64 libicu72 72.1-3 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libio-html-perl libio-html-perl 1.004-3 install ok installed libio-pty-perl libio-pty-perl 1:1.17-1 install ok installed libio-sessiondata-perl libio-sessiondata-perl 1.03-3 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.081-2 install ok installed libio-string-perl libio-string-perl 1.08-4 install ok installed libio-stringy-perl libio-stringy-perl 2.111-3 install ok installed libipc-run-perl libipc-run-perl 20220807.0-1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-2 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-2+deb12u2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-2+deb12u2 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-2+deb12u2 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.04-2 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.10-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmailtools-perl libmailtools-perl 2.21-2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmime-tools-perl libmime-tools-perl 5.510-1 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnet-http-perl libnet-http-perl 6.22-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.04-2 install ok installed libnet-ssleay-perl:amd64 libnet-ssleay-perl 1.92-2+b1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.52.0-1+deb12u1 install ok installed libnspr4:amd64 libnspr4 2:4.35-1 install ok installed libnss3:amd64 libnss3 2:3.87.1-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libpcsclite1:amd64 libpcsclite1 1.9.9-2 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.39-2 install ok installed libpsl5:amd64 libpsl5 0.21.2-1 install ok installed libregexp-ipv6-perl libregexp-ipv6-perl 0.03-3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libsoap-lite-perl libsoap-lite-perl 1.27-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.1-2 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.13-1~deb12u2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsub-uplevel-perl libsub-uplevel-perl 0.2800-3 install ok installed libsystemd0:amd64 libsystemd0 252.29-1~deb12u1 install ok installed libtask-weaken-perl libtask-weaken-perl 1.06-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtest-deep-perl libtest-deep-perl 1.204-1 install ok installed libtest-differences-perl libtest-differences-perl 0.69-1 install ok installed libtest-exception-perl libtest-exception-perl 0.43-3 install ok installed libtest-most-perl libtest-most-perl 0.38-1 install ok installed libtest-requiresinternet-perl libtest-requiresinternet-perl 0.05-4 install ok installed libtest-warn-perl libtest-warn-perl 0.37-2 install ok installed libtext-csv-perl libtext-csv-perl 2.02-2 install ok installed libtext-diff-perl libtext-diff-perl 1.45-2 install ok installed libtimedate-perl libtimedate-perl 2.3300-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libtree-dagnode-perl libtree-dagnode-perl 1.32-1 install ok installed libtry-tiny-perl libtry-tiny-perl 0.31-2 install ok installed libudev1:amd64 libudev1 252.29-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed liburi-perl liburi-perl 5.17-1 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libwww-perl libwww-perl 6.68-1 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.02-1 install ok installed libxml-dom-perl libxml-dom-perl 1.46-2 install ok installed libxml-dom-xpath-perl libxml-dom-xpath-perl 0.14-4 install ok installed libxml-libxml-perl libxml-libxml-perl 2.0207+dfsg+really+2.0134-1+b1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.12-2 install ok installed libxml-parser-perl libxml-parser-perl 2.46-4 install ok installed libxml-perl libxml-perl 0.08-4 install ok installed libxml-regexp-perl libxml-regexp-perl 0.04-1.1 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.09-3 install ok installed libxml-sax-perl libxml-sax-perl 1.02+dfsg-3 install ok installed libxml-simple-perl libxml-simple-perl 2.25-2 install ok installed libxml-twig-perl libxml-twig-perl 1:3.52-2 install ok installed libxml-writer-perl libxml-writer-perl 0.900-2 install ok installed libxml-xpathengine-perl libxml-xpathengine-perl 0.14-2 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.3~deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed netbase netbase 6.4 install ok installed openjdk-17-jdk-headless:amd64 openjdk-17-jdk-headless 17.0.12+7-2~deb12u1 install ok installed openjdk-17-jre-headless:amd64 openjdk-17-jre-headless 17.0.12+7-2~deb12u1 install ok installed openssl openssl 3.0.13-1~deb12u2 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl perl 5.36.0-7+deb12u1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed perl-openssl-defaults:amd64 perl-openssl-defaults 7+b1 install ok installed sed sed 4.9-1 install ok installed sensible-utils sensible-utils 0.0.17+nmu1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed ucf ucf 3.0043+nmu1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'remove', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'clustalw', 'default-jdk-headless', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'hyphy-common', 'hyphy-pt', 'java-common', 'libalgorithm-diff-perl', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-alignment-clustalw-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libbrotli1:amd64', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-stag-perl', 'libdbus-1-3:amd64', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libregexp-ipv6-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-17-jdk-headless:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf', 'bioperl-run'] 0m42.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bioperl bioperl-run ca-certificates ca-certificates-java clustalw default-jdk-headless default-jre-headless fontconfig-config fonts-dejavu-core hyphy-common hyphy-pt java-common libalgorithm-diff-perl libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-alignment-clustalw-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libbrotli1 libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libcups2 libcurl3-gnutls libdata-stag-perl libdbus-1-3 libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0ldbl libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libfontconfig1 libfreetype6 libgdbm-compat4 libgdbm6 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnghttp2-14 libnspr4 libnss3 libpcsclite1 libperl5.36 libpng16-16 libpsl5 libregexp-ipv6-perl librtmp1 libsasl2-2 libsasl2-modules-db libsoap-lite-perl libsqlite3-0 libssh2-1 libssl3 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-17-jdk-headless openjdk-17-jre-headless openssl perl perl-modules-5.36 perl-openssl-defaults sensible-utils ucf 0 upgraded, 0 newly installed, 139 to remove and 0 not upgraded. After this operation, 436 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 ... 13615 files and directories currently installed.) Removing bioperl-run (1.7.3-9) ... Removing bioperl (1.7.8-1) ... Removing default-jdk-headless (2:1.17-74) ... Removing openjdk-17-jdk-headless:amd64 (17.0.12+7-2~deb12u1) ... Removing default-jre-headless (2:1.17-74) ... Removing openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... Removing libbio-eutilities-perl (1.77-2) ... Removing libbio-asn1-entrezgene-perl (1.730-2) ... Removing libbio-cluster-perl (1.7.3-6) ... Removing libbio-variation-perl (1.7.5-3) ... Removing libxml-twig-perl (1:3.52-2) ... Removing libbio-tools-run-alignment-clustalw-perl (1.7.4-3) ... Removing clustalw (2.1+lgpl-7) ... Removing libfontconfig1:amd64 (2.14.1-4) ... Removing fontconfig-config (2.14.1-4) ... Removing fonts-dejavu-core (2.37-6) ... Removing hyphy-pt (2.5.47+dfsg-1) ... Removing hyphy-common (2.5.47+dfsg-1) ... Removing java-common (0.74) ... Removing libtest-most-perl (0.38-1) ... Removing libtest-differences-perl (0.69-1) ... Removing libtext-diff-perl (1.45-2) ... Removing libalgorithm-diff-perl (1.201-1) ... Removing libasound2:amd64 (1.2.8-1+b1) ... Removing libasound2-data (1.2.8-1) ... Removing libcups2:amd64 (2.4.2-3+deb12u7) ... Removing libavahi-client3:amd64 (0.8-10) ... Removing libavahi-common3:amd64 (0.8-10) ... Removing libavahi-common-data:amd64 (0.8-10) ... Removing libbio-featureio-perl (1.6.905-2) ... Removing libbio-tools-run-remoteblast-perl (1.7.3-3) ... Removing libbio-perl-run-perl (1.7.3-9) ... Removing libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Removing libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Removing libfreetype6:amd64 (2.12.1+dfsg-5+deb12u3) ... Removing libbrotli1:amd64 (1.0.9-2+b6) ... Removing libcapture-tiny-perl (0.48-2) ... Removing libexception-class-perl (1.45-1) ... Removing libclass-data-inheritable-perl (0.08-3) ... Removing libsoap-lite-perl (1.27-3) ... Removing libclass-inspector-perl (1.36-3) ... Removing libmime-tools-perl (5.510-1) ... Removing libconvert-binhex-perl (1.125-3) ... Removing libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Removing libdevel-stacktrace-perl (2.0400-2) ... Removing libfcgi-perl (0.82+ds-2) ... Removing libfcgi0ldbl:amd64 (2.4.2-2) ... Removing libtree-dagnode-perl (1.32-1) ... Removing libfile-slurp-tiny-perl (0.004-2) ... Removing libfile-sort-perl (1.01-3) ... Removing libxml-simple-perl (2.25-2) ... Removing libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing libxml-dom-xpath-perl (0.14-4) ... Removing libxml-xpathengine-perl (0.14-2) ... Removing libhttp-daemon-perl (6.16-1) ... Removing libtest-deep-perl (1.204-1) ... Removing libmailtools-perl (2.21-2) ... Removing libxml-writer-perl (0.900-2) ... Removing libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... Removing libgomp1:amd64 (12.2.0-14) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Removing libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Removing libicu72:amd64 (72.1-3) ... Removing libipc-run-perl (20220807.0-1) ... Removing libio-pty-perl (1:1.17-1) ... Removing libio-sessiondata-perl (1.03-3) ... Removing libnet-smtp-ssl-perl (1.04-2) ... Removing libio-stringy-perl (2.111-3) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-2) ... Removing libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Removing libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Removing liblcms2-2:amd64 (2.14-2) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Removing libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Removing libnss3:amd64 (2:3.87.1-1) ... Removing libnspr4:amd64 (2:4.35-1) ... Removing libpcsclite1:amd64 (1.9.9-2) ... Removing libpng16-16:amd64 (1.6.39-2) ... Removing libpsl5:amd64 (0.21.2-1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing libsqlite3-0:amd64 (3.40.1-2) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing libtest-warn-perl (0.37-2) ... Removing libtest-exception-perl (0.43-3) ... Removing libsub-uplevel-perl (0.2800-3) ... Removing libtask-weaken-perl (1.06-2) ... Removing libtest-requiresinternet-perl (0.05-4) ... Removing libtext-csv-perl (2.02-2) ... Removing libxml-dom-perl (1.46-2) ... Removing libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-namespacesupport-perl (1.12-2) ... Removing libxml-perl (0.08-4) ... Removing libxml-regexp-perl (0.04-1.1) ... Removing libxml-sax-base-perl (1.09-3) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.17+nmu1) ... Removing ca-certificates-java (20230710~deb12u1) ... Removing libxml-parser-perl (2.46-4) ... Removing libbio-perl-perl (1.7.8-1) ... Removing libdata-stag-perl (0.14-3) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing libio-string-perl (1.08-4) ... Removing libwww-perl (6.68-1) ... Removing libhttp-negotiate-perl (6.01-2) ... Removing libfile-listing-perl (6.15-1) ... Removing libhttp-cookies-perl (6.10-1) ... Removing libwww-robotrules-perl (6.02-1) ... Removing libhtml-tree-perl (5.07-3) ... Removing libhtml-parser-perl:amd64 (3.81-1) ... Removing libhtml-tagset-perl (3.20-6) ... Removing liblwp-protocol-https-perl (6.10-1) ... Removing libio-socket-ssl-perl (2.081-2) ... Removing libnet-http-perl (6.22-1) ... Removing libnet-ssleay-perl:amd64 (1.92-2+b1) ... Removing perl-openssl-defaults:amd64 (7+b1) ... Removing libtry-tiny-perl (0.31-2) ... Removing netbase (6.4) ... Removing ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libhttp-message-perl (6.44-1) ... Removing libclone-perl:amd64 (0.46-1) ... Removing libencode-locale-perl (1.05-3) ... Removing libhttp-date-perl (6.05-2) ... Removing libio-html-perl (1.004-3) ... Removing liblwp-mediatypes-perl (6.04-2) ... Removing liburi-perl (5.17-1) ... Removing libregexp-ipv6-perl (0.03-3) ... Removing openssl (3.0.13-1~deb12u2) ... Removing libssl3:amd64 (3.0.13-1~deb12u2) ... Removing libtimedate-perl (2.3300-2) ... Removing perl (5.36.0-7+deb12u1) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4:amd64 (1.23-3) ... Removing libgdbm6:amd64 (1.23-3) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'remove', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'clustalw', 'default-jdk-headless', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'hyphy-common', 'hyphy-pt', 'java-common', 'libalgorithm-diff-perl', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-alignment-clustalw-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libbrotli1:amd64', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-stag-perl', 'libdbus-1-3:amd64', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libregexp-ipv6-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-17-jdk-headless:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf', 'bioperl-run'] 0m42.3s INFO: Running scripts post_remove 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_remove_exceptions'] 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_remove_exceptions'] 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'clustalw', 'default-jdk-headless', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'hyphy-common', 'hyphy-pt', 'java-common', 'libalgorithm-diff-perl', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-alignment-clustalw-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libbrotli1:amd64', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-stag-perl', 'libdbus-1-3:amd64', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libregexp-ipv6-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-17-jdk-headless:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf'] 0m42.8s DUMP: dpkg: warning: ignoring request to remove bioperl which isn't installed (Reading database ... 6160 files and directories currently installed.) Purging configuration files for ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20230710~deb12u1) ... Purging configuration files for clustalw (2.1+lgpl-7) ... dpkg: warning: ignoring request to remove default-jdk-headless which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for fontconfig-config (2.14.1-4) ... Purging configuration files for fonts-dejavu-core (2.37-6) ... Purging configuration files for hyphy-common (2.5.47+dfsg-1) ... Purging configuration files for hyphy-pt (2.5.47+dfsg-1) ... Purging configuration files for java-common (0.74) ... dpkg: warning: ignoring request to remove libalgorithm-diff-perl 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 libbio-asn1-entrezgene-perl which isn't installed dpkg: warning: ignoring request to remove libbio-cluster-perl which isn't installed dpkg: warning: ignoring request to remove libbio-eutilities-perl which isn't installed dpkg: warning: ignoring request to remove libbio-featureio-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-run-perl which isn't installed dpkg: warning: ignoring request to remove libbio-tools-run-alignment-clustalw-perl which isn't installed dpkg: warning: ignoring request to remove libbio-tools-run-remoteblast-perl which isn't installed dpkg: warning: ignoring request to remove libbio-variation-perl which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcapture-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libclass-data-inheritable-perl which isn't installed dpkg: warning: ignoring request to remove libclass-inspector-perl which isn't installed dpkg: warning: ignoring request to remove libclone-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binhex-perl 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 libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdevel-stacktrace-perl which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libexception-class-perl which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfcgi-perl which isn't installed dpkg: warning: ignoring request to remove libfcgi0ldbl which isn't installed dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed dpkg: warning: ignoring request to remove libfile-slurp-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libfile-sort-perl which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhtml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tagset-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tree-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-cookies-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-daemon-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-date-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-message-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-negotiate-perl which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libio-html-perl which isn't installed dpkg: warning: ignoring request to remove libio-pty-perl which isn't installed dpkg: warning: ignoring request to remove libio-sessiondata-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libio-string-perl which isn't installed dpkg: warning: ignoring request to remove libio-stringy-perl which isn't installed dpkg: warning: ignoring request to remove libipc-run-perl which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove 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 liblwp-mediatypes-perl which isn't installed dpkg: warning: ignoring request to remove liblwp-protocol-https-perl which isn't installed dpkg: warning: ignoring request to remove libmailtools-perl which isn't installed dpkg: warning: ignoring request to remove libmime-tools-perl which isn't installed dpkg: warning: ignoring request to remove libnet-http-perl which isn't installed dpkg: warning: ignoring request to remove libnet-smtp-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libnet-ssleay-perl which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 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 libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libregexp-ipv6-perl which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsoap-lite-perl 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 libsub-uplevel-perl which isn't installed dpkg: warning: ignoring request to remove libtask-weaken-perl which isn't installed dpkg: warning: ignoring request to remove libtest-deep-perl which isn't installed dpkg: warning: ignoring request to remove libtest-differences-perl which isn't installed dpkg: warning: ignoring request to remove libtest-exception-perl which isn't installed dpkg: warning: ignoring request to remove libtest-most-perl which isn't installed dpkg: warning: ignoring request to remove libtest-requiresinternet-perl which isn't installed dpkg: warning: ignoring request to remove libtest-warn-perl which isn't installed dpkg: warning: ignoring request to remove libtext-csv-perl which isn't installed dpkg: warning: ignoring request to remove libtext-diff-perl which isn't installed dpkg: warning: ignoring request to remove libtimedate-perl which isn't installed dpkg: warning: ignoring request to remove libtree-dagnode-perl which isn't installed dpkg: warning: ignoring request to remove libtry-tiny-perl which isn't installed dpkg: warning: ignoring request to remove liburi-perl which isn't installed dpkg: warning: ignoring request to remove libwww-perl which isn't installed dpkg: warning: ignoring request to remove libwww-robotrules-perl which isn't installed dpkg: warning: ignoring request to remove libxml-dom-perl which isn't installed dpkg: warning: ignoring request to remove libxml-dom-xpath-perl which isn't installed dpkg: warning: ignoring request to remove libxml-libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed dpkg: warning: ignoring request to remove libxml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-regexp-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed Purging configuration files for libxml-sax-perl (1.02+dfsg-3) ... dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libxml-twig-perl which isn't installed dpkg: warning: ignoring request to remove libxml-writer-perl which isn't installed dpkg: warning: ignoring request to remove libxml-xpathengine-perl which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed Purging configuration files for netbase (6.4) ... dpkg: warning: ignoring request to remove openjdk-17-jdk-headless which isn't installed Purging configuration files for openjdk-17-jre-headless:amd64 (17.0.12+7-2~deb12u1) ... Purging configuration files for openssl (3.0.13-1~deb12u2) ... Purging configuration files for perl (5.36.0-7+deb12u1) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed dpkg: warning: ignoring request to remove perl-openssl-defaults which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043+nmu1) ... 0m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'clustalw', 'default-jdk-headless', 'default-jre-headless', 'fontconfig-config', 'fonts-dejavu-core', 'hyphy-common', 'hyphy-pt', 'java-common', 'libalgorithm-diff-perl', 'libasound2:amd64', 'libasound2-data', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-alignment-clustalw-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libbrotli1:amd64', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libdata-stag-perl', 'libdbus-1-3:amd64', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0ldbl:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libglib2.0-0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnghttp2-14:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libregexp-ipv6-perl', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-17-jdk-headless:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.36', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf'] 0m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', 'bioperl-run'] 0m42.8s DUMP: dpkg: warning: ignoring request to remove bioperl-run which isn't installed 0m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', 'bioperl-run'] 0m42.8s INFO: Running scripts post_purge 0m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_purge_exceptions'] 0m42.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_purge_exceptions'] 0m42.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', '--pending'] 0m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--purge', '--pending'] 0m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--remove', '--pending'] 0m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg', '--remove', '--pending'] 0m42.9s INFO: Running scripts post_test 0m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_test_exceptions'] 0m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'tmp/scripts/post_test_exceptions'] 0m42.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m43.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m43.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-divert', '--list'] 0m43.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m43.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'dpkg-divert', '--list'] 0m43.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'clean'] 0m43.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o', 'apt-get', 'clean'] 0m43.4s DEBUG: Recording chroot state 0m44.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/shm'] 0m44.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/shm'] 0m44.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/console'] 0m44.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/console'] 0m44.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/ptmx'] 0m44.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/ptmx'] 0m44.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts'] 0m44.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/dev/pts'] 0m44.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/proc'] 0m44.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o/proc'] 0m44.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m44.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0v1xfw0o'] 0m44.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp0v1xfw0o 0m44.5s INFO: PASS: Upgrading between Debian distributions. 0m44.5s INFO: PASS: All tests. 0m44.5s INFO: piuparts run ends. ret=0 End: 2024-08-22 09:11:23 GMT