Start: 2023-11-28 21:54:25 GMT [testing] Package: snpeff Version: 5.1+d+dfsg-3 Installed-Size: 21 Maintainer: Debian Med Packaging Team Architecture: all Depends: default-jre, libsnpeff-java (= 5.1+d+dfsg-3) Suggests: vcfanno Description: genetic variant annotation and effect prediction toolbox - tool Homepage: https://pcingola.github.io/SnpEff/ Description-md5: 11554ad652b85830dc017ab4d21c9b35 Section: java Priority: optional Filename: pool/main/s/snpeff/snpeff_5.1+d+dfsg-3_all.deb Size: 6940 MD5sum: 4e6be1cd5ccedf890d7905d60b291ac8 SHA256: 5dcadb8c40b2de87b470f47520f34fbb5fe9d2e47d9ce7d68e530d513545dd3c [sid] Package: snpeff Version: 5.2.b+dfsg-1 Installed-Size: 21 Maintainer: Debian Med Packaging Team Architecture: all Depends: default-jre, libsnpeff-java (= 5.2.b+dfsg-1) Suggests: vcfanno Description: genetic variant annotation and effect prediction toolbox - tool Homepage: https://pcingola.github.io/SnpEff/ Description-md5: 11554ad652b85830dc017ab4d21c9b35 Section: java Priority: optional Filename: pool/main/s/snpeff/snpeff_5.2.b+dfsg-1_all.deb Size: 7164 MD5sum: 5ffb41ed08c80ba9274161f31727a889 SHA256: 477f3dc6932384d1d8338dbc5ffb46b7406dc1bceff3e646f4f2ea8b5b472562 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt snpeff=5.2.b+dfsg-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt snpeff=5.2.b+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-26-amd64 #1 SMP Debian 5.10.197-1 (2023-09-29) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmplpdohf81 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmplpdohf81 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmplpdohf81', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m2.1s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmplpdohf81', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmplpdohf81/proc'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmplpdohf81/proc'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts'] 0m2.1s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/ptmx'] 0m2.1s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/ptmx'] 0m2.1s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/console'] 0m2.1s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/console'] 0m2.1s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/shm'] 0m2.1s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/shm'] 0m2.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.2s DEBUG: Created policy-rc.d and chmodded it. 0m2.2s DEBUG: Created resolv.conf. 0m2.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmplpdohf81/tmp/scripts/ 0m2.2s INFO: Running scripts post_chroot_unpack 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'update'] 0m3.6s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'update'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-yf', 'dist-upgrade'] 0m4.2s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-yf', 'dist-upgrade'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.5s DUMP: 6deb31383f0b3f5ce38f822020ad491f - 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.5s INFO: Running scripts post_setup 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_dummy_users'] 0m5.7s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_dummy_users'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_forbid_home'] 0m5.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_forbid_home'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_minimize'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_minimize'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_zz_backports'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_setup_zz_backports'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.8s 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+deb12u2 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+b1 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+b1 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+deb12u2 install ok installed libc6:amd64 libc6 2.36-9+deb12u2 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 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+b1 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+b3 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+b1 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 252.17-1~deb12u1 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 252.17-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+b1 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+b1 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 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 install ok installed tzdata tzdata 2023c-5 install ok installed usr-is-merged usr-is-merged 35 install ok installed util-linux util-linux 2.38.1-5+b1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m5.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 0m6.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 0m6.1s INFO: Running scripts is_testable 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/is_testable_uninstallable'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/is_testable_uninstallable'] 0m6.1s INFO: Running scripts pre_test 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_test_exceptions'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_test_exceptions'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_test_root_password'] 0m6.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_test_root_password'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'show', '--no-all-versions', 'snpeff'] 0m6.4s DUMP: Package: snpeff Version: 5.1+d+dfsg-3 Installed-Size: 21 Maintainer: Debian Med Packaging Team Architecture: all Depends: default-jre, libsnpeff-java (= 5.1+d+dfsg-3) Suggests: vcfanno Description-en: genetic variant annotation and effect prediction toolbox - tool "We are all different!" Geneticists agree to this. Even twins, who are said to be identical are on a molecular level only "mostly" identical. And even within the exact same individual, healthy cells acquire mutations such that we are all genetic mosaics. Changes to individual cells may be induced by environmental factors, e.g. like UV light, or happen sporadically as mishaps during cellular divisions. . Because there are so many genetic differences, and most have just no particular meaning for the development of a phenotype, i.e. most have no effect, it would be nice to have heuristics implemented that direct the researcher towards single-nucleotide polymorphisms (SNPs) that are most likely to be relevant. This identifies the gene that causes or contributes to, e.g, an illness, and possibly also genes that are affected by that change. Such mechanistic understanding of a disease, particularly when multiple genes and multiple genetic variants are contributing to the then "polygenic" phenotype, is at the onset of drug development and increasingly also for selecting individualized therapies in the clinic. . SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes (such as amino acid changes). The inputs are predicted variants (SNPs, insertions, deletions and MNPs). The input file is usually obtained as a result of a sequencing experiment, and it is usually in variant call format (VCF). . SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes). . This package contains the command line tool. Description-md5: 11554ad652b85830dc017ab4d21c9b35 Homepage: https://pcingola.github.io/SnpEff/ Section: java Priority: optional Filename: pool/main/s/snpeff/snpeff_5.1+d+dfsg-3_all.deb Size: 6940 MD5sum: 4e6be1cd5ccedf890d7905d60b291ac8 SHA256: 5dcadb8c40b2de87b470f47520f34fbb5fe9d2e47d9ce7d68e530d513545dd3c 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'show', '--no-all-versions', 'snpeff'] 0m6.4s INFO: apt-cache knows about the following packages: snpeff 0m6.4s INFO: Running scripts pre_install 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 0m6.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.2,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 0m6.6s DUMP: snpeff: Installed: (none) Candidate: 5.1+d+dfsg-3 Version table: 5.1+d+dfsg-3 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff'] 0m45.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: adwaita-icon-theme ant ant-optional at-spi2-common ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme java-common junit4 junit5 libactivation-java libantlr4-runtime-java libaopalliance-java libapache-pom-java libapfloat-java libapiguardian-java libargs4j-java libasm-java libasound2 libasound2-data libatinject-jsr330-api-java libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbiojava6-java libbrotli1 libbsd0 libcairo2 libcdi-api-java libcharts4j-java libciftools-java libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-compress-java libcommons-exec-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-parent-java libcommons-text-java libcups2 libdatrie1 libdbus-1-3 libdeflate0 libdistlib-java libdom4j-java libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libdtd-parser-java libedit2 libelf1 liberror-prone-java libexec-maven-plugin-java libexpat1 libfastinfoset-java libfastutil-java libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgoogle-gson-java libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtsjdk-java libhttpclient-java libhttpcore-java libicu72 libinchi1 libistack-commons-java libitext5-java libjackson2-annotations-java libjackson2-core-java libjackson2-databind-java libjaxb-api-java libjaxb-java libjaxen-java libjbig0 libjgrapht-java libjgraphx-java libjheaps-java libjmol-java libjni-inchi-java libjni-inchi-jni libjpeg62-turbo libjson-simple-java libjsoup-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 libllvm15 liblog4j1.2-java libmaven-archiver-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-jar-plugin-java libmaven-parent-java libmaven-resolver-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmmtf-java libmsgpack-java libnaga-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libopentest4j-java libopentest4j-reporting-java libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcsclite1 libpicocli-java libpixman-1-0 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libpng16-16 libqdox2-java librelaxng-datatype-java librhino-java librngom-java libsensors-config libsensors5 libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsnpeff-java libsqlite3-0 libssl3 libstax-ex-java libstreambuffer-java libthai-data libthai0 libtiff6 libtrove3-java libtxw2-java libunivocity-parsers-java libvecmath-java libwagon-http-java libwagon-provider-api-java libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxbean-reflect-java libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxi6 libxinerama1 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxrandr2 libxrender1 libxshmfence1 libxsom-java libxtst6 libxxf86vm1 libxz-java libz3-4 ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl shared-mime-info x11-common Suggested packages: ant-doc default-jdk | java-compiler | java-sdk antlr javacc junit jython libbcel-java libbsf-java libcommons-net-java libmail-java libjaxp1.3-java libjdepend-java libjsch-java liboro-java libregexp-java libxalan2-java libasound2-plugins alsa-utils libatinject-jsr330-api-java-doc libbiojava6-java-doc libel-api-java libcommons-io-java-doc libcommons-lang-java-doc libcommons-lang3-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java cups-common libmsv-java libxpp2-java libxpp3-java libjdom1-java low-memory-monitor libgoogle-gson-java-doc krb5-doc krb5-user gvfs libcglib-java picard-tools python3 libbcpkix-java libbcprov-java libxml-security-java libjackson2-annotations-java-doc libxom-java libjmol-java-doc libjson-simple-doc libjsoup-java-doc libjsr305-java-doc liblcms2-utils liblog4j1.2-java-doc libmaven-file-management-java-doc libmaven-shared-incremental-java-doc libmaven-shared-utils-java-doc liblogback-java libmmtf-java-doc libngs-java-doc pciutils pcscd libeclipse-jdt-core-java libplexus-utils2-java-doc rhino lm-sensors testng libsnpeff-java-doc libxerces2-java-doc libxml-commons-resolver1.1-java-doc libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic vcfanno Recommended packages: librsvg2-common alsa-ucm-conf alsa-topology-conf dbus libdistlib-java-doc libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs libgail-common libgtk2.0-bin krb5-locales libjansi-java libatk-wrapper-java-jni fonts-dejavu-extra The following NEW packages will be installed: adwaita-icon-theme ant ant-optional at-spi2-common ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core gtk-update-icon-cache hicolor-icon-theme java-common junit4 junit5 libactivation-java libantlr4-runtime-java libaopalliance-java libapache-pom-java libapfloat-java libapiguardian-java libargs4j-java libasm-java libasound2 libasound2-data libatinject-jsr330-api-java libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbiojava6-java libbrotli1 libbsd0 libcairo2 libcdi-api-java libcharts4j-java libciftools-java libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-compress-java libcommons-exec-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-parent-java libcommons-text-java libcups2 libdatrie1 libdbus-1-3 libdeflate0 libdistlib-java libdom4j-java libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libdtd-parser-java libedit2 libelf1 liberror-prone-java libexec-maven-plugin-java libexpat1 libfastinfoset-java libfastutil-java libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgoogle-gson-java libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtsjdk-java libhttpclient-java libhttpcore-java libicu72 libinchi1 libistack-commons-java libitext5-java libjackson2-annotations-java libjackson2-core-java libjackson2-databind-java libjaxb-api-java libjaxb-java libjaxen-java libjbig0 libjgrapht-java libjgraphx-java libjheaps-java libjmol-java libjni-inchi-java libjni-inchi-jni libjpeg62-turbo libjson-simple-java libjsoup-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 libllvm15 liblog4j1.2-java libmaven-archiver-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-jar-plugin-java libmaven-parent-java libmaven-resolver-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmmtf-java libmsgpack-java libnaga-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libopentest4j-java libopentest4j-reporting-java libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcsclite1 libpicocli-java libpixman-1-0 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libpng16-16 libqdox2-java librelaxng-datatype-java librhino-java librngom-java libsensors-config libsensors5 libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsnpeff-java libsqlite3-0 libssl3 libstax-ex-java libstreambuffer-java libthai-data libthai0 libtiff6 libtrove3-java libtxw2-java libunivocity-parsers-java libvecmath-java libwagon-http-java libwagon-provider-api-java libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxbean-reflect-java libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxi6 libxinerama1 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxrandr2 libxrender1 libxshmfence1 libxsom-java libxtst6 libxxf86vm1 libxz-java libz3-4 ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl shared-mime-info snpeff x11-common 0 upgraded, 242 newly installed, 0 to remove and 0 not upgraded. Need to get 211 MB of archives. After this operation, 649 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.11-1~deb12u1 [2018 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.11-1~deb12u1 [1420 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1 [306 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 shared-mime-info amd64 2.2-1 [729 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6 [316 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-1+b1 [139 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 gtk-update-icon-cache amd64 3.24.38-2~deb12u1 [44.0 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 adwaita-icon-theme all 43-1 [5124 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20230620~deb12u1 [11.6 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.74 [6388 B] Get:22 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.10-1~deb12u1 [201 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:29 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3+deb12u4 [244 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.87.1-1 [1331 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1+b1 [362 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-2 [49.7 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.8+7-1~deb12u1 [43.8 MB] Get:48 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-74 [2936 B] Get:49 http://deb.debian.org/debian bookworm/main amd64 ant all 1.10.13-1 [2161 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 ant-optional all 1.10.13-1 [449 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 at-spi2-common all 2.46.0-5 [162 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-common all 2.24.33-2 [2700 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libatk1.0-0 amd64 2.46.0-5 [49.6 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u1 [292 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u1 [759 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libxdamage1 amd64 1:1.1.6-1 [15.1 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1+b1 [84.2 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-0 amd64 2.24.33-2 [1855 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.6.0-1 [51.8 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.114-1 [7112 B] Get:84 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.114-1+b1 [37.5 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.3.6-1+deb12u1 [35.7 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.8.4-2+deb12u1 [192 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 libxcb-randr0 amd64 1.15-1 [117 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:95 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.114-1+b1 [20.9 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libdrm-intel1 amd64 2.4.114-1+b1 [64.0 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.114-1+b1 [19.1 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.114-1+b1 [21.8 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-3.1 [7216 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 libllvm15 amd64 1:15.0.6-4+b1 [23.1 MB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7.1 [34.2 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.3.6-1+deb12u1 [7239 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.3.6-1+deb12u1 [147 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.6.0-1 [34.4 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.6.0-1 [88.4 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre amd64 17.0.8+7-1~deb12u1 [184 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.17-74 [1056 B] Get:116 http://deb.debian.org/debian bookworm/main amd64 libhamcrest-java all 2.2-1 [121 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 junit4 all 4.13.2-3 [348 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libapiguardian-java all 1.1.2-1 [4656 B] Get:119 http://deb.debian.org/debian bookworm/main amd64 libopentest4j-java all 1.2.0-4 [9516 B] Get:120 http://deb.debian.org/debian bookworm/main amd64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 libpicocli-java all 4.6.2-2 [390 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 junit5 all 5.9.2-1 [2398 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libantlr4-runtime-java all 4.7.2-5 [315 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get:127 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 29-2 [5276 B] Get:128 http://deb.debian.org/debian bookworm/main amd64 libapfloat-java all 1.10.1-2 [620 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libargs4j-java all 2.33-2 [138 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libasm-java all 9.4-1 [389 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get:132 http://deb.debian.org/debian bookworm/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libgoogle-gson-java all 2.10-1 [261 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libciftools-java all 4.0.5-1 [2139 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libcommons-codec-java all 1.15-1 [292 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libcommons-math-java all 2.2-8 [926 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libguava-java all 31.1-1 [2613 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libitext5-java all 5.5.13.3-2 [2665 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libjackson2-annotations-java all 2.14.0-1 [68.8 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libjackson2-core-java all 2.14.1-1 [447 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libjackson2-databind-java all 2.14.0-1 [1584 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libjaxb-api-java all 2.3.1-1 [119 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libjaxen-java all 1.1.6-4 [214 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 libdom4j-java all 2.1.3-2 [310 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libcommons-io-java all 2.11.0-2 [319 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-utils-java all 3.3.4-1 [138 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libcommons-cli-java all 1.5.0-1 [60.0 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang3-java all 3.12.0-2 [561 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libguice-java all 4.2.3-2 [1435 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libmaven-parent-java all 35-1 [6140 B] Get:154 http://deb.debian.org/debian bookworm/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libwagon-provider-api-java all 3.5.3-1 [48.2 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libmaven-resolver-java all 1.6.3-1 [548 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get:160 http://deb.debian.org/debian bookworm/main amd64 libplexus-interpolation-java all 1.26-1 [76.8 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-4 [8484 B] Get:163 http://deb.debian.org/debian bookworm/main amd64 libcdi-api-java all 1.2-3 [54.3 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 libslf4j-java all 1.7.32-1 [144 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 libsisu-inject-java all 0.3.4-2 [347 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libsisu-plexus-java all 0.3.4-3 [181 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libmaven3-core-java all 3.8.7-1 [1572 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 libcommons-compress-java all 1.22-1 [615 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get:172 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-3 [26.0 kB] Get:173 http://deb.debian.org/debian bookworm/main amd64 libsnappy-jni amd64 1.1.8.3-1 [7152 B] Get:174 http://deb.debian.org/debian bookworm/main amd64 libsnappy-java all 1.1.8.3-1 [98.9 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libxz-java all 1.9-1 [143 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libwagon-http-java all 3.5.3-1 [49.5 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 libistack-commons-java all 3.0.6-5 [145 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 libcodemodel-java all 2.6+jaxb2.3.0.1-10.1 [164 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 librelaxng-datatype-java all 1.0+ds1-3.1 [11.7 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 librngom-java all 2.3.0.1-10.1 [290 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 libxsom-java all 2.3.0.1-10.1 [400 kB] Get:187 http://deb.debian.org/debian bookworm/main amd64 libtxw2-java all 2.3.0.1-10.1 [134 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 libdtd-parser-java all 1.2-1 [64.9 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 libstax-ex-java all 1.7.8-3 [40.9 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 libstreambuffer-java all 1.5.4-1.1 [74.0 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 libfastinfoset-java all 1.2.12-3 [343 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 libjaxb-java all 2.3.0.1-10.1 [1973 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 libmaven-archiver-java all 3.6.0-1 [25.1 kB] Get:195 http://deb.debian.org/debian bookworm/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 libcommons-text-java all 1.10.0-1 [211 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 libfastutil-java all 8.5.11+dfsg-1 [19.6 MB] Get:198 http://deb.debian.org/debian bookworm/main amd64 libjheaps-java all 0.14-2 [144 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-external-java all 1.4.01-5 [240 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get:201 http://deb.debian.org/debian bookworm/main amd64 libjgraphx-java all 2.1.0.7-3 [807 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 libjgrapht-java all 1.5.1-3 [1584 kB] Get:203 http://deb.debian.org/debian bookworm/main amd64 libinchi1 amd64 1.03+dfsg-4+b2 [436 kB] Get:204 http://deb.debian.org/debian bookworm/main amd64 libjni-inchi-jni amd64 0.8+dfsg-7 [9064 B] Get:205 http://deb.debian.org/debian bookworm/main amd64 libcommons-exec-java all 1.3-2 [48.1 kB] Get:206 http://deb.debian.org/debian bookworm/main amd64 libexec-maven-plugin-java all 3.1.0-1 [66.2 kB] Get:207 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-incremental-java all 1.1-3 [9524 B] Get:208 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get:209 http://deb.debian.org/debian bookworm/main amd64 libxbean-reflect-java all 4.5-8 [133 kB] Get:210 http://deb.debian.org/debian bookworm/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get:211 http://deb.debian.org/debian bookworm/main amd64 libplexus-compiler-java all 2.12.1-1 [99.8 kB] Get:212 http://deb.debian.org/debian bookworm/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get:213 http://deb.debian.org/debian bookworm/main amd64 libplexus-languages-java all 1.1.1-2 [47.3 kB] Get:214 http://deb.debian.org/debian bookworm/main amd64 libmaven-compiler-plugin-java all 3.10.1-2 [59.0 kB] Get:215 http://deb.debian.org/debian bookworm/main amd64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get:216 http://deb.debian.org/debian bookworm/main amd64 libjni-inchi-java all 0.8+dfsg-7 [33.2 kB] Get:217 http://deb.debian.org/debian bookworm/main amd64 libnaga-java all 3.0+svn80-5 [43.5 kB] Get:218 http://deb.debian.org/debian bookworm/main amd64 libjmol-java all 14.32.83+dfsg-2 [8699 kB] Get:219 http://deb.debian.org/debian bookworm/main amd64 libjson-simple-java all 2.3.0-1 [63.8 kB] Get:220 http://deb.debian.org/debian bookworm/main amd64 libmsgpack-java all 0.9.3-1 [155 kB] Get:221 http://deb.debian.org/debian bookworm/main amd64 libmmtf-java all 1.0.11-1 [187 kB] Get:222 http://deb.debian.org/debian bookworm/main amd64 libvecmath-java all 1.5.2-7 [97.0 kB] Get:223 http://deb.debian.org/debian bookworm/main amd64 libbiojava6-java all 6.1.0+dfsg-4 [5367 kB] Get:224 http://deb.debian.org/debian bookworm/main amd64 libcharts4j-java all 1.3-4 [162 kB] Get:225 http://deb.debian.org/debian bookworm/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:226 http://deb.debian.org/debian bookworm/main amd64 libcommons-math3-java all 3.6.1-3 [2018 kB] Get:227 http://deb.debian.org/debian bookworm/main amd64 libdistlib-java all 1.0-4 [72.1 kB] Get:228 http://deb.debian.org/debian bookworm/main amd64 libfreemarker-java all 2.3.31-2 [1528 kB] Get:229 http://deb.debian.org/debian bookworm/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get:230 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get:231 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get:232 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get:233 http://deb.debian.org/debian bookworm/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get:234 http://deb.debian.org/debian bookworm/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2 [1050 kB] Get:235 http://deb.debian.org/debian bookworm/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-6~deb12u1 [154 kB] Get:236 http://deb.debian.org/debian bookworm/main amd64 libngs-jni amd64 3.0.3+dfsg-6~deb12u1 [23.5 kB] Get:237 http://deb.debian.org/debian bookworm/main amd64 libngs-java amd64 3.0.3+dfsg-6~deb12u1 [110 kB] Get:238 http://deb.debian.org/debian bookworm/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get:239 http://deb.debian.org/debian bookworm/main amd64 libhtsjdk-java all 3.0.4+dfsg-2 [1813 kB] Get:240 http://deb.debian.org/debian bookworm/main amd64 libtrove3-java all 3.0.3-5 [2146 kB] Get:241 http://deb.debian.org/debian bookworm/main amd64 libsnpeff-java all 5.1+d+dfsg-3 [2150 kB] Get:242 http://deb.debian.org/debian bookworm/main amd64 snpeff all 5.1+d+dfsg-3 [6940 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 211 MB in 6s (38.3 MB/s) Selecting previously unselected package libssl3:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6100 files and directories currently installed.) Preparing to unpack .../000-libssl3_3.0.11-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.11-1~deb12u1) ... Selecting previously unselected package openssl. Preparing to unpack .../001-openssl_3.0.11-1~deb12u1_amd64.deb ... Unpacking openssl (3.0.11-1~deb12u1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../002-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../003-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../004-libgdk-pixbuf2.0-common_2.42.10+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../005-libglib2.0-0_2.74.6-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../006-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../007-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... 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Unpacking libncbi-ngs3:amd64 (3.0.3+dfsg-6~deb12u1) ... Selecting previously unselected package libngs-jni:amd64. Preparing to unpack .../235-libngs-jni_3.0.3+dfsg-6~deb12u1_amd64.deb ... Unpacking libngs-jni:amd64 (3.0.3+dfsg-6~deb12u1) ... Selecting previously unselected package libngs-java:amd64. Preparing to unpack .../236-libngs-java_3.0.3+dfsg-6~deb12u1_amd64.deb ... Unpacking libngs-java:amd64 (3.0.3+dfsg-6~deb12u1) ... Selecting previously unselected package librhino-java. Preparing to unpack .../237-librhino-java_1.7.14-2.1_all.deb ... Unpacking librhino-java (1.7.14-2.1) ... Selecting previously unselected package libhtsjdk-java. Preparing to unpack .../238-libhtsjdk-java_3.0.4+dfsg-2_all.deb ... Unpacking libhtsjdk-java (3.0.4+dfsg-2) ... Selecting previously unselected package libtrove3-java. Preparing to unpack .../239-libtrove3-java_3.0.3-5_all.deb ... Unpacking libtrove3-java (3.0.3-5) ... Selecting previously unselected package libsnpeff-java. 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Setting up libjsr305-java (0.1~+svn49-11) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up java-common (0.74) ... Setting up libdatrie1:amd64 (0.2.13-2+b1) ... Setting up libqdox2-java (2.0.3-1) ... Setting up libaopalliance-java (20070526-7) ... Setting up libcommons-cli-java (1.5.0-1) ... Setting up libjheaps-java (0.14-2) ... Setting up libcommons-exec-java (1.3-2) ... Setting up libvecmath-java (1.5.2-7) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libglvnd0:amd64 (1.6.0-1) ... Setting up libgoogle-gson-java (2.10-1) ... Setting up libmjson-java (1.4.0-3) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Setting up libpicocli-java (4.6.2-2) ... Setting up libasm-java (9.4-1) ... Setting up libssl3:amd64 (3.0.11-1~deb12u1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up liblog4j1.2-java (1.2.17-11) ... Setting up libplexus-component-annotations-java (2.1.1-1) ... Setting up libantlr4-runtime-java (4.7.2-5) ... Setting up libjson-simple-java (2.3.0-1) ... Setting up libunivocity-parsers-java (2.9.1-1) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libsnappy1v5:amd64 (1.1.9-3) ... Setting up libcharts4j-java (1.3-4) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libexec-maven-plugin-java (3.1.0-1) ... Setting up libgeronimo-annotation-1.3-spec-java (1.3-1) ... Setting up libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Setting up libasound2-data (1.2.8-1) ... Setting up librhino-java (1.7.14-2.1) ... Setting up libz3-4:amd64 (4.8.12-3.1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libjaxen-java (1.1.6-4) ... Setting up libapiguardian-java (1.1.2-1) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libx11-data (2:1.8.4-2+deb12u1) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-10) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libplexus-interpolation-java (1.26-1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libitext5-java (5.5.13.3-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libxz-java (1.9-1) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libpcsclite1:amd64 (1.9.9-2) ... Setting up libsensors5:amd64 (1:3.6.0-7.1) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libactivation-java (1.2.0-2) ... Setting up libhamcrest-java (2.2-1) ... Setting up libglapi-mesa:amd64 (22.3.6-1+deb12u1) ... Setting up libapfloat-java (1.10.1-2) ... Setting up libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Setting up libgif7:amd64 (5.2.1-2.5) ... Setting up libtrove3-java (3.0.3-5) ... Setting up libfreemarker-java (2.3.31-2) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up libjsoup-java (1.15.3-1) ... Setting up at-spi2-common (2.46.0-5) ... Setting up libcommons-math-java (2.2-8) ... Setting up libtiff6:amd64 (4.5.0-6) ... Setting up libxml-commons-external-java (1.4.01-5) ... Setting up libxbean-reflect-java (4.5-8) ... Setting up libasound2:amd64 (1.2.8-1+b1) ... Setting up libopentest4j-java (1.2.0-4) ... Setting up libjackson2-core-java (2.14.1-1) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libthai-data (0.1.29-1) ... Setting up libcommons-math3-java (3.6.1-3) ... Setting up libgtk2.0-common (2.24.33-2) ... Setting up libatk1.0-0:amd64 (2.46.0-5) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libxerces2-java (2.12.2-1) ... Setting up librelaxng-datatype-java (1.0+ds1-3.1) ... Setting up openssl (3.0.11-1~deb12u1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libdrm-common (2.4.114-1) ... Setting up libcdi-api-java (1.2-3) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libargs4j-java (2.33-2) ... Setting up libinchi1 (1.03+dfsg-4+b2) ... Setting up libnaga-java (3.0+svn80-5) ... Setting up libdom4j-java (2.1.3-2) ... Setting up libjaxb-api-java (2.3.1-1) ... Setting up libwagon-provider-api-java (3.5.3-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up libxcb-xfixes0:amd64 (1.15-1) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libstax-ex-java (1.7.8-3) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libmaven-parent-java (35-1) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-10) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libsisu-inject-java (0.3.4-2) ... Setting up libnss3:amd64 (2:3.87.1-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libciftools-java (4.0.5-1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libjackson2-databind-java (2.14.0-1) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.4-3) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up libxcb-sync1:amd64 (1.15-1) ... Setting up shared-mime-info (2.2-1) ... Setting up libstreambuffer-java (1.5.4-1.1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libcommons-lang3-java (3.12.0-2) ... Setting up libxcb-dri2-0:amd64 (1.15-1) ... Setting up librngom-java (2.3.0.1-10.1) ... Setting up libdrm2:amd64 (2.4.114-1+b1) ... Setting up libjni-inchi-jni (0.8+dfsg-7) ... Setting up libjgraphx-java (2.1.0.7-3) ... Setting up libxcb-randr0:amd64 (1.15-1) ... Setting up libllvm15:amd64 (1:15.0.6-4+b1) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u1) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+b1) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up libxsom-java (2.3.0.1-10.1) ... Setting up libcommons-codec-java (1.15-1) ... Setting up libxcomposite1:amd64 (1:0.4.5-1) ... Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libdrm-amdgpu1:amd64 (2.4.114-1+b1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up gtk-update-icon-cache (3.24.38-2~deb12u1) ... Setting up libx11-xcb1:amd64 (2:1.8.4-2+deb12u1) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libngs-jni:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libdrm-nouveau2:amd64 (2.4.114-1+b1) ... Setting up libxdamage1:amd64 (1:1.1.6-1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up libdrm-radeon1:amd64 (2.4.114-1+b1) ... Setting up libdistlib-java (1.0-4) ... Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libdrm-intel1:amd64 (2.4.114-1+b1) ... Setting up libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcairo2:amd64 (1.16.0-7) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libmaven-resolver-java (1.6.3-1) ... Setting up adwaita-icon-theme (43-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libxfixes3:amd64 (1:6.0.0-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up libcups2:amd64 (2.4.2-3+deb12u4) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libwagon-http-java (3.5.3-1) ... Setting up libmaven-shared-utils-java (3.3.4-1) ... Setting up libfastinfoset-java (1.2.12-3) ... Setting up libngs-java:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libhtsjdk-java (3.0.4+dfsg-2) ... Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libglx-mesa0:amd64 (22.3.6-1+deb12u1) ... Setting up libxi6:amd64 (2:1.8-1+b1) ... Setting up libglx0:amd64 (1.6.0-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up libgl1:amd64 (1.6.0-1) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libgtk2.0-0:amd64 (2.24.33-2) ... Setting up libmaven-archiver-java (3.6.0-1) ... Setting up openjdk-17-jre-headless:amd64 (17.0.8+7-1~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 ca-certificates-java (20230620~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 junit4 (4.13.2-3) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up default-jre-headless (2:1.17-74) ... Setting up openjdk-17-jre:amd64 (17.0.8+7-1~deb12u1) ... Setting up default-jre (2:1.17-74) ... Setting up libguava-java (31.1-1) ... Setting up ant (1.10.13-1) ... Setting up junit5 (5.9.2-1) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up libguice-java (4.2.3-2) ... Setting up ant-optional (1.10.13-1) ... Setting up libmaven3-core-java (3.8.7-1) ... Setting up libmaven-shared-incremental-java (1.1-3) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-compiler-java (2.12.1-1) ... Setting up libmaven-compiler-plugin-java (3.10.1-2) ... Setting up libjni-inchi-java (0.8+dfsg-7) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up libjmol-java (14.32.83+dfsg-2) ... Setting up libistack-commons-java (3.0.6-5) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.10.0-1) ... Setting up libcodemodel-java (2.6+jaxb2.3.0.1-10.1) ... Setting up libmsgpack-java (0.9.3-1) ... Setting up libtxw2-java (2.3.0.1-10.1) ... Setting up libjaxb-java (2.3.0.1-10.1) ... Setting up libmmtf-java (1.0.11-1) ... Setting up libjgrapht-java (1.5.1-3) ... Setting up libbiojava6-java (6.1.0+dfsg-4) ... Setting up libsnpeff-java (5.1+d+dfsg-3) ... Setting up snpeff (5.1+d+dfsg-3) ... Processing triggers for libc-bin (2.36-9+deb12u2) ... 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 (20230620~deb12u1) ... done. 0m45.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff'] 0m45.5s INFO: Running scripts post_install 0m45.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 0m45.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 0m45.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 0m46.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 0m46.2s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmplpdohf81 to sid 0m46.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m46.2s INFO: Running scripts pre_distupgrade 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_exceptions'] 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_exceptions'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m46.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m46.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'update'] 0m50.5s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9616 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7079 kB] Fetched 16.9 MB in 3s (5074 kB/s) Reading package lists... 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'update'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-yf', 'dist-upgrade'] 1m28.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libllvm15 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: fonts-dejavu-mono gcc-13-base libllvm16 libsharpyuv0 libunistring5 The following packages will be upgraded: adduser adwaita-icon-theme ant ant-optional apt at-spi2-common base-files base-passwd bash bsdutils ca-certificates-java coreutils dash debian-archive-keyring debianutils default-jre default-jre-headless diffutils dpkg e2fsprogs findutils fontconfig fontconfig-config fonts-dejavu-core gcc-12-base grep gtk-update-icon-cache init-system-helpers java-common junit4 junit5 libapfloat-java libapt-pkg6.0 libasm-java libasound2 libasound2-data libatk1.0-0 libaudit-common libaudit1 libavahi-client3 libavahi-common-data libavahi-common3 libblkid1 libbrotli1 libbsd0 libc-bin libc6 libcairo2 libciftools-java libcom-err2 libcommons-compress-java libcommons-lang3-java libcommons-logging-java libcommons-text-java libcrypt1 libcups2 libdb5.3 libdbus-1-3 libdebconfclient0 libdeflate0 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libexpat1 libext2fs2 libfastutil-java libffi8 libfontconfig1 libfreetype6 libfribidi0 libgcc-s1 libgcrypt20 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgmp10 libgnutls30 libgoogle-gson-java libgpg-error0 libgssapi-krb5-2 libguava-java libhamcrest-java libharfbuzz0b libhogweed6 libhtsjdk-java libicu72 libidn2-0 libjgrapht-java libjmol-java libk5crypto3 libkrb5-3 libkrb5support0 liblerc4 libllvm15 liblzma5 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmd0 libmount1 libmsgpack-java libncbi-ngs3 libnettle8 libngs-java libngs-jni libnspr4 libnss3 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre2-8-0 libpcsclite1 libplexus-compiler-java libpng16-16 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsensors-config libsensors5 libsepol2 libsmartcols1 libsnappy-java libsnappy-jni libsnappy1v5 libsnpeff-java libsqlite3-0 libss2 libssl3 libstdc++6 libsystemd0 libtasn1-6 libtiff6 libtinfo6 libudev1 libuuid1 libwebp7 libx11-6 libx11-data libx11-xcb1 libxml-commons-external-java libxml2 libxxhash0 libzstd1 login logsave mawk mount ncurses-base ncurses-bin openjdk-17-jre openjdk-17-jre-headless openssl passwd perl-base shared-mime-info snpeff sysvinit-utils tzdata usr-is-merged util-linux util-linux-extra zlib1g 180 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 208 MB of archives. After this operation, 143 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13 [70.6 kB] Get:2 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.14 [88.3 kB] Get:3 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.21-2 [1492 kB] Get:4 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.39.2-6 [96.7 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.37-12 [2753 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.37-12 [601 kB] Get:7 http://deb.debian.org/debian sid/main amd64 gcc-13-base amd64 13.2.0-7 [40.8 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 13.2.0-7 [57.7 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2 [557 kB] Get:10 http://deb.debian.org/debian sid/main amd64 coreutils amd64 9.4-2+b1 [2948 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.5+dfsg2-2 [295 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 13.2.0-7 [696 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.47-3 [77.8 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.10.2-3 [704 kB] Get:15 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.4.5-0.1 [239 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 255~rc3-2 [359 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 255~rc3-2 [121 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.2-2 [26.4 kB] Get:19 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.3.dfsg-3 [87.5 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0 amd64 2.7.7 [946 kB] Get:21 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.1 [1561 kB] Get:22 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-6 [92.1 kB] Get:23 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:24 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.9.0-5 [636 kB] Get:25 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-3 [431 kB] Get:26 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.13+dfsg1-3 [616 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.4+20231121-1 [341 kB] Get:28 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.4+20231121-1 [429 kB] Get:29 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.36.0-10 [1602 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.39.2-6 [159 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-4 [261 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.5-1 [73.9 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.39.2-6 [190 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:3.1.1-1 [10.8 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:3.1.1-1 [47.3 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.39.2-6 [116 kB] Get:37 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.39.2-6 [154 kB] Get:38 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.39.2-6 [1225 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.4-2 [23.5 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.0-5 [417 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.1-2 [421 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libnettle8 amd64 3.9.1-2 [295 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libhogweed6 amd64 3.9.1-2 [327 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.4-1+b1 [125 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-3 [48.3 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libgnutls30 amd64 3.8.1-4+b1 [1418 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.271 [9940 B] Get:48 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.2 [50.7 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.36-2 [89.7 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.5.2-9.1 [65.5 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:52 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.5-2 [277 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.5-1 [89.7 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.2-9.1 [49.9 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.2-9.1 [264 kB] Get:56 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.13+dfsg1-3 [972 kB] Get:57 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:58 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libseccomp2 amd64 2.5.4-2 [46.8 kB] Get:60 http://deb.debian.org/debian sid/main amd64 apt amd64 2.7.7 [1362 kB] Get:61 http://deb.debian.org/debian sid/main amd64 usr-is-merged all 38 [5504 B] Get:62 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:63 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.4+20231121-1 [267 kB] Get:64 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.08-3 [31.8 kB] Get:65 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.0-2+b1 [19.9 kB] Get:66 http://deb.debian.org/debian sid/main amd64 libext2fs2 amd64 1.47.0-2+b1 [205 kB] Get:67 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.0-2+b1 [572 kB] Get:68 http://deb.debian.org/debian sid/main amd64 mount amd64 2.39.2-6 [143 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.2-9.1 [134 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libdb5.3 amd64 5.3.28+dfsg2-4 [697 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-1 [35.5 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libssl3 amd64 3.1.4-2 [2058 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.39.2-6 [29.6 kB] Get:74 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20231102-1 [135 kB] Get:75 http://deb.debian.org/debian sid/main amd64 tzdata all 2023c-11 [252 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-3 [307 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libglib2.0-0 amd64 2.78.1-4 [1451 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-4 [9396 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.3 [686 kB] Get:80 http://deb.debian.org/debian sid/main amd64 shared-mime-info amd64 2.4-1 [751 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libpng16-16 amd64 1.6.40-2 [276 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.18-1 [40.9 kB] Get:83 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-3 [170 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.3.2-0.3 [107 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.3.2-0.3 [308 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-2 [322 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-3 [138 kB] Get:88 http://deb.debian.org/debian sid/main amd64 gtk-update-icon-cache amd64 3.24.38-6 [45.4 kB] Get:89 http://deb.debian.org/debian sid/main amd64 adwaita-icon-theme all 45.0-2 [739 kB] Get:90 http://deb.debian.org/debian sid/main amd64 ant-optional all 1.10.14-1 [455 kB] Get:91 http://deb.debian.org/debian sid/main amd64 ca-certificates-java all 20230710 [11.8 kB] Get:92 http://deb.debian.org/debian sid/main amd64 java-common all 0.75 [6640 B] Get:93 http://deb.debian.org/debian sid/main amd64 libavahi-client3 amd64 0.8-13 [46.7 kB] Get:94 http://deb.debian.org/debian sid/main amd64 libavahi-common3 amd64 0.8-13 [43.0 kB] Get:95 http://deb.debian.org/debian sid/main amd64 libavahi-common-data amd64 0.8-13 [111 kB] Get:96 http://deb.debian.org/debian sid/main amd64 libdbus-1-3 amd64 1.14.10-3 [203 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-5 [135 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.20.1-5 [332 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.20.1-5 [79.6 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.20.1-5 [32.9 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.0-2+b1 [20.1 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libcups2 amd64 2.4.7-1 [246 kB] Get:103 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:104 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:105 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.14.2-6 [316 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.5.0-2 [99.0 kB] Get:107 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2 [304 kB] Get:108 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.2+dfsg-1 [437 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.14.2-6 [387 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libnspr4 amd64 2:4.35-1.1 [108 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.44.2-1 [882 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libnss3 amd64 2:3.95-1 [1362 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libasound2 amd64 1.2.10-1 [369 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libasound2-data all 1.2.10-1 [20.6 kB] Get:115 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 8.0.1-1 [2158 kB] Get:116 http://deb.debian.org/debian sid/main amd64 libpcsclite1 amd64 2.0.1-1 [50.8 kB] Get:117 http://deb.debian.org/debian sid/main amd64 openjdk-17-jre amd64 17.0.9+9-2 [184 kB] Get:118 http://deb.debian.org/debian sid/main amd64 openjdk-17-jre-headless amd64 17.0.9+9-2 [43.7 MB] Get:119 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.7-1 [802 kB] Get:120 http://deb.debian.org/debian sid/main amd64 libx11-xcb1 amd64 2:1.8.7-1 [232 kB] Get:121 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libdrm-common all 2.4.117-1 [7264 B] Get:123 http://deb.debian.org/debian sid/main amd64 libdrm2 amd64 2.4.117-1 [37.5 kB] Get:124 http://deb.debian.org/debian sid/main amd64 libdrm-amdgpu1 amd64 2.4.117-1 [21.0 kB] Get:125 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.17-3 [51.6 kB] Get:126 http://deb.debian.org/debian sid/main amd64 libdrm-intel1 amd64 2.4.117-1 [62.3 kB] Get:127 http://deb.debian.org/debian sid/main amd64 libdrm-nouveau2 amd64 2.4.117-1 [19.1 kB] Get:128 http://deb.debian.org/debian sid/main amd64 libdrm-radeon1 amd64 2.4.117-1 [21.8 kB] Get:129 http://deb.debian.org/debian sid/main amd64 libelf1 amd64 0.190-1 [176 kB] Get:130 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.11.7-4 [115 kB] Get:131 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20230828-1 [93.1 kB] Get:132 http://deb.debian.org/debian sid/main amd64 libllvm16 amd64 1:16.0.6-19 [23.1 MB] Get:133 http://deb.debian.org/debian sid/main amd64 libsensors-config all 1:3.6.0-8 [14.4 kB] Get:134 http://deb.debian.org/debian sid/main amd64 libsensors5 amd64 1:3.6.0-8 [34.4 kB] Get:135 http://deb.debian.org/debian sid/main amd64 libgl1-mesa-dri amd64 23.2.1-1 [8306 kB] Get:136 http://deb.debian.org/debian sid/main amd64 libglx-mesa0 amd64 23.2.1-1 [148 kB] Get:137 http://deb.debian.org/debian sid/main amd64 libglapi-mesa amd64 23.2.1-1 [34.8 kB] Get:138 http://deb.debian.org/debian sid/main amd64 libgl1 amd64 1.7.0-1 [89.7 kB] Get:139 http://deb.debian.org/debian sid/main amd64 libglx0 amd64 1.7.0-1 [34.7 kB] Get:140 http://deb.debian.org/debian sid/main amd64 libglvnd0 amd64 1.7.0-1 [51.3 kB] Get:141 http://deb.debian.org/debian sid/main amd64 default-jre amd64 2:1.17-75 [1056 B] Get:142 http://deb.debian.org/debian sid/main amd64 default-jre-headless amd64 2:1.17-75 [3068 B] Get:143 http://deb.debian.org/debian sid/main amd64 ant all 1.10.14-1 [2162 kB] Get:144 http://deb.debian.org/debian sid/main amd64 at-spi2-common all 2.50.0-1 [163 kB] Get:145 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.14.2-6 [462 kB] Get:146 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.3.0-11 [40.7 kB] Get:147 http://deb.debian.org/debian sid/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get:148 http://deb.debian.org/debian sid/main amd64 junit4 all 4.13.2-4 [349 kB] Get:149 http://deb.debian.org/debian sid/main amd64 junit5 all 5.10.1-1 [2458 kB] Get:150 http://deb.debian.org/debian sid/main amd64 libapfloat-java all 1.11.0-1 [671 kB] Get:151 http://deb.debian.org/debian sid/main amd64 libasm-java all 9.5-1 [387 kB] Get:152 http://deb.debian.org/debian sid/main amd64 libatk1.0-0 amd64 2.50.0-1 [49.7 kB] Get:153 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.0-1 [530 kB] Get:154 http://deb.debian.org/debian sid/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get:155 http://deb.debian.org/debian sid/main amd64 libciftools-java all 5.0.2-1 [2189 kB] Get:156 http://deb.debian.org/debian sid/main amd64 libcommons-compress-java all 1.24.0-1 [630 kB] Get:157 http://deb.debian.org/debian sid/main amd64 libcommons-lang3-java all 3.13.0-1 [607 kB] Get:158 http://deb.debian.org/debian sid/main amd64 libcommons-logging-java all 1.2-4 [60.2 kB] Get:159 http://deb.debian.org/debian sid/main amd64 libcommons-text-java all 1.11.0-1 [217 kB] Get:160 http://deb.debian.org/debian sid/main amd64 libfastutil-java all 8.5.12+dfsg-1 [19.6 MB] Get:161 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.13-3 [71.1 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get:163 http://deb.debian.org/debian sid/main amd64 libngs-java amd64 3.0.3+dfsg-6 [110 kB] Get:164 http://deb.debian.org/debian sid/main amd64 libngs-jni amd64 3.0.3+dfsg-6 [23.4 kB] Get:165 http://deb.debian.org/debian sid/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-6 [154 kB] Get:166 http://deb.debian.org/debian sid/main amd64 libsnappy1v5 amd64 1.1.10-1 [27.3 kB] Get:167 http://deb.debian.org/debian sid/main amd64 libsnappy-jni amd64 1.1.10.5-1 [6360 B] Get:168 http://deb.debian.org/debian sid/main amd64 libsnappy-java all 1.1.10.5-1 [87.4 kB] Get:169 http://deb.debian.org/debian sid/main amd64 libhtsjdk-java all 3.0.5+dfsg-2 [1814 kB] Get:170 http://deb.debian.org/debian sid/main amd64 libjgrapht-java all 1.5.2-1 [1610 kB] Get:171 http://deb.debian.org/debian sid/main amd64 libjmol-java all 14.32.83+dfsg-3 [8698 kB] Get:172 http://deb.debian.org/debian sid/main amd64 libllvm15 amd64 1:15.0.7-10 [23.2 MB] Get:173 http://deb.debian.org/debian sid/main amd64 libmbedcrypto7 amd64 2.28.5-1 [279 kB] Get:174 http://deb.debian.org/debian sid/main amd64 libmbedx509-1 amd64 2.28.5-1 [129 kB] Get:175 http://deb.debian.org/debian sid/main amd64 libmbedtls14 amd64 2.28.5-1 [165 kB] Get:176 http://deb.debian.org/debian sid/main amd64 libmsgpack-java all 0.9.6-1 [161 kB] Get:177 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.51.0+ds-3 [34.5 kB] Get:178 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.51.0+ds-3 [214 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.51.0+ds-3 [46.7 kB] Get:180 http://deb.debian.org/debian sid/main amd64 libplexus-compiler-java all 2.12.1-2 [99.0 kB] Get:181 http://deb.debian.org/debian sid/main amd64 snpeff all 5.2.b+dfsg-1 [7164 B] Get:182 http://deb.debian.org/debian sid/main amd64 libsnpeff-java all 5.2.b+dfsg-1 [1656 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.0-2+b1 [24.8 kB] Get:184 http://deb.debian.org/debian sid/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get:185 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.1.4-2 [1426 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 208 MB in 2s (115 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 ... 18435 files and directories currently installed.) Preparing to unpack .../base-files_13_amd64.deb ... Unpacking base-files (13) over (12.4+deb12u2) ... Setting up base-files (13) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... (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 ... 18435 files and directories currently installed.) Preparing to unpack .../debianutils_5.14_amd64.deb ... Unpacking debianutils (5.14) over (5.7-0.5~deb12u1) ... Setting up debianutils (5.14) ... (Reading database ... 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(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 ... 18433 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.39.2-6_amd64.deb ... Unpacking bsdutils (1:2.39.2-6) over (1:2.38.1-5+b1) ... Setting up bsdutils (1:2.39.2-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18432 files and directories currently installed.) Preparing to unpack .../libc6_2.37-12_amd64.deb ... Unpacking libc6:amd64 (2.37-12) over (2.36-9+deb12u2) ... Setting up libc6:amd64 (2.37-12) ... (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 ... 18432 files and directories currently installed.) Preparing to unpack .../libc-bin_2.37-12_amd64.deb ... Unpacking libc-bin (2.37-12) over (2.36-9+deb12u2) ... Setting up libc-bin (2.37-12) ... Selecting previously unselected package gcc-13-base:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18432 files and directories currently installed.) Preparing to unpack .../gcc-13-base_13.2.0-7_amd64.deb ... Unpacking gcc-13-base:amd64 (13.2.0-7) ... Setting up gcc-13-base:amd64 (13.2.0-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18437 files and directories currently installed.) Preparing to unpack .../libgcc-s1_13.2.0-7_amd64.deb ... Unpacking libgcc-s1:amd64 (13.2.0-7) over (12.2.0-14) ... Setting up libgcc-s1:amd64 (13.2.0-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18437 files and directories currently installed.) Preparing to unpack .../libgmp10_2%3a6.3.0+dfsg-2_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-2) over (2:6.2.1+dfsg1-1.1) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18437 files and directories currently installed.) Preparing to unpack .../coreutils_9.4-2+b1_amd64.deb ... Unpacking coreutils (9.4-2+b1) over (9.1-1) ... Setting up coreutils (9.4-2+b1) ... (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 ... 18443 files and directories currently installed.) Preparing to unpack .../libzstd1_1.5.5+dfsg2-2_amd64.deb ... Unpacking libzstd1:amd64 (1.5.5+dfsg2-2) over (1.5.4+dfsg2-5) ... Setting up libzstd1:amd64 (1.5.5+dfsg2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libstdc++6_13.2.0-7_amd64.deb ... Unpacking libstdc++6:amd64 (13.2.0-7) over (12.2.0-14) ... Setting up libstdc++6:amd64 (13.2.0-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.47-3_amd64.deb ... Unpacking libgpg-error0:amd64 (1.47-3) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.47-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.10.2-3_amd64.deb ... Unpacking libgcrypt20:amd64 (1.10.2-3) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.10.2-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../liblzma5_5.4.5-0.1_amd64.deb ... Unpacking liblzma5:amd64 (5.4.5-0.1) over (5.4.1-0.2) ... Setting up liblzma5:amd64 (5.4.5-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libsystemd0_255~rc3-2_amd64.deb ... Unpacking libsystemd0:amd64 (255~rc3-2) over (252.17-1~deb12u1) ... Setting up libsystemd0:amd64 (255~rc3-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libudev1_255~rc3-2_amd64.deb ... Unpacking libudev1:amd64 (255~rc3-2) over (252.17-1~deb12u1) ... Setting up libudev1:amd64 (255~rc3-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.2-2_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.2-2) over (0.8.1-1) ... Setting up libxxhash0:amd64 (0.8.2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.3.dfsg-3_amd64.deb ... Unpacking zlib1g:amd64 (1:1.3.dfsg-3) over (1:1.2.13.dfsg-1) ... Setting up zlib1g:amd64 (1:1.3.dfsg-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.7.7_amd64.deb ... Unpacking libapt-pkg6.0:amd64 (2.7.7) over (2.6.1) ... Setting up libapt-pkg6.0:amd64 (2.7.7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../archives/dpkg_1.22.1_amd64.deb ... Unpacking dpkg (1.22.1) over (1.21.22) ... Setting up dpkg (1.22.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18438 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-6_amd64.deb ... Unpacking dash (0.5.12-6) over (0.5.12-2) ... Setting up dash (0.5.12-6) ... Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' (Reading database ... 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(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 ... 18438 files and directories currently installed.) Preparing to unpack .../findutils_4.9.0-5_amd64.deb ... Unpacking findutils (4.9.0-5) over (4.9.0-4) ... Setting up findutils (4.9.0-5) ... (Reading database ... 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(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 ... 18437 files and directories currently installed.) Preparing to unpack .../perl-base_5.36.0-10_amd64.deb ... Unpacking perl-base (5.36.0-10) over (5.36.0-7) ... Setting up perl-base (5.36.0-10) ... (Reading database ... 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(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 ... 18436 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.42-4_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.42-4) over (10.42-1) ... Setting up libpcre2-8-0:amd64 (10.42-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18436 files and directories currently installed.) Preparing to unpack .../libselinux1_3.5-1_amd64.deb ... Unpacking libselinux1:amd64 (3.5-1) over (3.4-1+b6) ... Setting up libselinux1:amd64 (3.5-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18435 files and directories currently installed.) Preparing to unpack .../libmount1_2.39.2-6_amd64.deb ... Unpacking libmount1:amd64 (2.39.2-6) over (2.38.1-5+b1) ... Setting up libmount1:amd64 (2.39.2-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18434 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a3.1.1-1_all.deb ... Unpacking libaudit-common (1:3.1.1-1) over (1:3.0.9-1) ... Setting up libaudit-common (1:3.1.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18434 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a3.1.1-1_amd64.deb ... Unpacking libaudit1:amd64 (1:3.1.1-1) over (1:3.0.9-1) ... Setting up libaudit1:amd64 (1:3.1.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18434 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.39.2-6_amd64.deb ... Unpacking libsmartcols1:amd64 (2.39.2-6) over (2.38.1-5+b1) ... Setting up libsmartcols1:amd64 (2.39.2-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18433 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.39.2-6_amd64.deb ... Unpacking util-linux-extra (2.39.2-6) over (2.38.1-5+b1) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty Setting up util-linux-extra (2.39.2-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18438 files and directories currently installed.) Preparing to unpack .../util-linux_2.39.2-6_amd64.deb ... Unpacking util-linux (2.39.2-6) over (2.38.1-5+b1) ... Setting up util-linux (2.39.2-6) ... (Reading database ... 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(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 ... 18439 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.0-5_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.0-5) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.0-5) ... Selecting previously unselected package libunistring5:amd64. (Reading database ... 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(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 ... 18445 files and directories currently installed.) Preparing to unpack .../libhogweed6_3.9.1-2_amd64.deb ... Unpacking libhogweed6:amd64 (3.9.1-2) over (3.8.1-2) ... Setting up libhogweed6:amd64 (3.9.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18445 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.4-1+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.4-1+b1) over (2.3.3-1+b1) ... Setting up libidn2-0:amd64 (2.3.4-1+b1) ... (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 ... 18446 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18446 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.8.1-4+b1_amd64.deb ... Unpacking libgnutls30:amd64 (3.8.1-4+b1) over (3.7.9-2) ... Setting up libgnutls30:amd64 (3.8.1-4+b1) ... (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 ... 18447 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.271_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.271) over (0.270) ... Setting up libdebconfclient0:amd64 (0.271) ... (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 ... 18447 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.2_amd64.deb ... Unpacking base-passwd (3.6.2) over (3.6.1) ... Setting up base-passwd (3.6.2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18447 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.36-2_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.36-2) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.36-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18447 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.2-9.1_amd64.deb ... Unpacking libpam0g:amd64 (1.5.2-9.1) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.5.2-9.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18446 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.5-1_all.deb ... Unpacking libsemanage-common (3.5-1) over (3.4-1) ... Setting up libsemanage-common (3.5-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18446 files and directories currently installed.) Preparing to unpack .../libsepol2_3.5-2_amd64.deb ... Unpacking libsepol2:amd64 (3.5-2) over (3.4-2.1) ... Setting up libsepol2:amd64 (3.5-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18446 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.5-1_amd64.deb ... Unpacking libsemanage2:amd64 (3.5-1) over (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.5-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18445 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.2-9.1_amd64.deb ... Unpacking libpam-modules-bin (1.5.2-9.1) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.5.2-9.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18444 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.2-9.1_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.2-9.1) over (1.5.2-6+deb12u1) ... Setting up libpam-modules:amd64 (1.5.2-9.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18443 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.13+dfsg1-3_amd64.deb ... Unpacking passwd (1:4.13+dfsg1-3) over (1:4.13+dfsg1-1+b1) ... Setting up passwd (1:4.13+dfsg1-3) ... (Reading database ... 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Processing triggers for debianutils (5.14) ... Processing triggers for hicolor-icon-theme (0.17-2) ... Processing triggers for libc-bin (2.37-12) ... Processing triggers for ca-certificates-java (20230710) ... done. Setting up ant (1.10.14-1) ... Setting up junit4 (4.13.2-4) ... Setting up default-jre-headless (2:1.17-75) ... Setting up openjdk-17-jre:amd64 (17.0.9+9-2) ... Setting up default-jre (2:1.17-75) ... Setting up ant-optional (1.10.14-1) ... Setting up junit5 (5.10.1-1) ... Setting up libsnpeff-java (5.2.b+dfsg-1) ... Installing new version of config file /etc/snpeff/snpEff.config ... Setting up snpeff (5.2.b+dfsg-1) ... 1m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-yf', 'dist-upgrade'] 1m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m30.1s DUMP: 6c579eca37a52b4dd41b87a146f0d717 - 1m30.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m30.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'show', '--no-all-versions', 'snpeff'] 1m30.4s DUMP: Package: snpeff Version: 5.2.b+dfsg-1 Installed-Size: 21 Maintainer: Debian Med Packaging Team Architecture: all Depends: default-jre, libsnpeff-java (= 5.2.b+dfsg-1) Suggests: vcfanno Description-en: genetic variant annotation and effect prediction toolbox - tool "We are all different!" Geneticists agree to this. Even twins, who are said to be identical are on a molecular level only "mostly" identical. And even within the exact same individual, healthy cells acquire mutations such that we are all genetic mosaics. Changes to individual cells may be induced by environmental factors, e.g. like UV light, or happen sporadically as mishaps during cellular divisions. . Because there are so many genetic differences, and most have just no particular meaning for the development of a phenotype, i.e. most have no effect, it would be nice to have heuristics implemented that direct the researcher towards single-nucleotide polymorphisms (SNPs) that are most likely to be relevant. This identifies the gene that causes or contributes to, e.g, an illness, and possibly also genes that are affected by that change. Such mechanistic understanding of a disease, particularly when multiple genes and multiple genetic variants are contributing to the then "polygenic" phenotype, is at the onset of drug development and increasingly also for selecting individualized therapies in the clinic. . SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes (such as amino acid changes). The inputs are predicted variants (SNPs, insertions, deletions and MNPs). The input file is usually obtained as a result of a sequencing experiment, and it is usually in variant call format (VCF). . SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes). . This package contains the command line tool. Description-md5: 11554ad652b85830dc017ab4d21c9b35 Homepage: https://pcingola.github.io/SnpEff/ Section: java Priority: optional Filename: pool/main/s/snpeff/snpeff_5.2.b+dfsg-1_all.deb Size: 7164 MD5sum: 5ffb41ed08c80ba9274161f31727a889 SHA256: 477f3dc6932384d1d8338dbc5ffb46b7406dc1bceff3e646f4f2ea8b5b472562 1m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'show', '--no-all-versions', 'snpeff'] 1m30.4s INFO: apt-cache knows about the following packages: snpeff 1m30.4s INFO: Running scripts pre_install 1m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 1m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 1m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 1m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 1m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 1m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 1m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 1m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 1m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 1m30.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m30.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 1m30.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 1m30.6s DUMP: snpeff: Installed: 5.2.b+dfsg-1 Candidate: 5.2.b+dfsg-1 Version table: *** 5.2.b+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m30.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 1m30.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff'] 1m31.2s DUMP: Reading package lists... Building dependency tree... Reading state information... snpeff is already the newest version (5.2.b+dfsg-1). The following package was automatically installed and is no longer required: libllvm15 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff'] 1m31.2s INFO: Running scripts post_install 1m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 1m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 1m31.2s INFO: Running scripts post_distupgrade 1m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_exceptions'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_exceptions'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_zz_backports'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_distupgrade_zz_backports'] 1m31.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m31.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m31.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m32.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m32.4s INFO: Running scripts pre_install 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 1m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_database-server'] 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 1m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_exceptions'] 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 1m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_extras'] 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 1m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture'] 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 1m32.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy'] 1m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 1m32.5s DUMP: snpeff: Installed: 5.2.b+dfsg-1 Candidate: 5.2.b+dfsg-1 Version table: *** 5.2.b+dfsg-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-cache', 'policy', 'snpeff'] 1m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff=5.2.b+dfsg-1'] 1m33.2s DUMP: Reading package lists... Building dependency tree... Reading state information... snpeff is already the newest version (5.2.b+dfsg-1). The following package was automatically installed and is no longer required: libllvm15 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', '-y', 'install', 'snpeff=5.2.b+dfsg-1'] 1m33.2s INFO: Running scripts post_install 1m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 1m33.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_install_exceptions'] 1m33.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m33.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m34.0s INFO: /bin converted to /usr/bin by /usr merge 1m34.0s INFO: /lib converted to /usr/lib by /usr merge 1m34.0s INFO: /lib/init converted to /usr/lib/init by /usr merge 1m34.0s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 1m34.0s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 1m34.0s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 1m34.0s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 1m34.0s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 1m34.0s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 1m34.0s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 1m34.0s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 1m34.0s INFO: /lib64 converted to /usr/lib64 by /usr merge 1m34.0s INFO: /sbin converted to /usr/sbin by /usr merge 1m34.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmplpdohf81', '-ac', '--ignore-obsolete'] 1m39.0s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmplpdohf81', '-ac', '--ignore-obsolete'] 1m39.0s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m39.0s DUMP: 0.15.6 1m39.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m39.0s INFO: Running adequate version 0.15.6 now. 1m39.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'snpeff'] 1m39.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'snpeff'] 1m39.2s INFO: Running scripts pre_remove 1m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m44.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m44.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m44.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m44.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_exceptions'] 1m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/pre_remove_exceptions'] 1m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m44.8s DUMP: install ok installed adduser adduser 3.137 install ok installed adwaita-icon-theme adwaita-icon-theme 45.0-2 install ok installed ant ant 1.10.14-1 install ok installed ant-optional ant-optional 1.10.14-1 install ok installed apt apt 2.7.7 install ok installed at-spi2-common at-spi2-common 2.50.0-1 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.2 install ok installed bash bash 5.2.21-2 install ok installed bsdutils bsdutils 1:2.39.2-6 install ok installed ca-certificates ca-certificates 20230311 install ok installed ca-certificates-java ca-certificates-java 20230710 install ok installed coreutils coreutils 9.4-2+b1 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.14 install ok installed default-jre default-jre 2:1.17-75 install ok installed default-jre-headless default-jre-headless 2:1.17-75 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.1 install ok installed e2fsprogs e2fsprogs 1.47.0-2+b1 install ok installed findutils findutils 4.9.0-5 install ok installed fontconfig fontconfig 2.14.2-6 install ok installed fontconfig-config fontconfig-config 2.14.2-6 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed gcc-12-base:amd64 gcc-12-base 12.3.0-11 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-7 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.11-3 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.38-6 install ok installed gzip gzip 1.12-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed java-common java-common 0.75 install ok installed junit4 junit4 4.13.2-4 install ok installed junit5 junit5 5.10.1-1 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libactivation-java libactivation-java 1.2.0-2 install ok installed libantlr4-runtime-java libantlr4-runtime-java 4.7.2-5 install ok installed libaopalliance-java libaopalliance-java 20070526-7 install ok installed libapache-pom-java libapache-pom-java 29-2 install ok installed libapfloat-java libapfloat-java 1.11.0-1 install ok installed libapiguardian-java libapiguardian-java 1.1.2-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.7.7 install ok installed libargs4j-java libargs4j-java 2.33-2 install ok installed libasm-java libasm-java 9.5-1 install ok installed libasound2:amd64 libasound2 1.2.10-1 install ok installed libasound2-data libasound2-data 1.2.10-1 install ok installed libatinject-jsr330-api-java libatinject-jsr330-api-java 1.0+ds1-5 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.50.0-1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:3.1.1-1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-13 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-13 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-13 install ok installed libbiojava6-java libbiojava6-java 6.1.0+dfsg-4 install ok installed libblkid1:amd64 libblkid1 2.39.2-6 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2 install ok installed libbsd0:amd64 libbsd0 0.11.7-4 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.37-12 install ok installed libc6:amd64 libc6 2.37-12 install ok installed libcairo2:amd64 libcairo2 1.18.0-1 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 libcdi-api-java libcdi-api-java 1.2-3 install ok installed libcharts4j-java libcharts4j-java 1.3-4 install ok installed libciftools-java libciftools-java 5.0.2-1 install ok installed libcodemodel-java libcodemodel-java 2.6+jaxb2.3.0.1-10.1 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2+b1 install ok installed libcommons-cli-java libcommons-cli-java 1.5.0-1 install ok installed libcommons-codec-java libcommons-codec-java 1.15-1 install ok installed libcommons-compress-java libcommons-compress-java 1.24.0-1 install ok installed libcommons-exec-java libcommons-exec-java 1.3-2 install ok installed libcommons-io-java libcommons-io-java 2.11.0-2 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang-java libcommons-lang-java 2.6-10 install ok installed libcommons-lang3-java libcommons-lang3-java 3.13.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.2-4 install ok installed libcommons-math-java libcommons-math-java 2.2-8 install ok installed libcommons-math3-java libcommons-math3-java 3.6.1-3 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcommons-text-java libcommons-text-java 1.11.0-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-2 install ok installed libcups2:amd64 libcups2 2.4.7-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-4 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.10-3 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.271 install ok installed libdeflate0:amd64 libdeflate0 1.18-1 install ok installed libdistlib-java libdistlib-java 1.0-4 install ok installed libdom4j-java libdom4j-java 2.1.3-2 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.117-1 install ok installed libdrm-common libdrm-common 2.4.117-1 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.117-1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.117-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.117-1 install ok installed libdrm2:amd64 libdrm2 2.4.117-1 install ok installed libdtd-parser-java libdtd-parser-java 1.2-1 install ok installed libedit2:amd64 libedit2 3.1-20230828-1 install ok installed libelf1:amd64 libelf1 0.190-1 install ok installed liberror-prone-java liberror-prone-java 2.18.0-1 install ok installed libexec-maven-plugin-java libexec-maven-plugin-java 3.1.0-1 install ok installed libexpat1:amd64 libexpat1 2.5.0-2 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2+b1 install ok installed libfastinfoset-java libfastinfoset-java 1.2.12-3 install ok installed libfastutil-java libfastutil-java 8.5.12+dfsg-1 install ok installed libffi8:amd64 libffi8 3.4.4-2 install ok installed libfontconfig1:amd64 libfontconfig1 2.14.2-6 install ok installed libfreemarker-java libfreemarker-java 2.3.31-2 install ok installed libfreetype6:amd64 libfreetype6 2.13.2+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.13-3 install ok installed libgcc-s1:amd64 libgcc-s1 13.2.0-7 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.2-3 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.10+dfsg-3 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.10+dfsg-3 install ok installed libgeronimo-annotation-1.3-spec-java libgeronimo-annotation-1.3-spec-java 1.3-1 install ok installed libgeronimo-interceptor-3.0-spec-java libgeronimo-interceptor-3.0-spec-java 1.0.1-4 install ok installed libgif7:amd64 libgif7 5.2.1-2.5 install ok installed libgl1:amd64 libgl1 1.7.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 23.2.1-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 23.2.1-1 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.78.1-4 install ok installed libglvnd0:amd64 libglvnd0 1.7.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 23.2.1-1 install ok installed libglx0:amd64 libglx0 1.7.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2 install ok installed libgnutls30:amd64 libgnutls30 3.8.1-4+b1 install ok installed libgoogle-gson-java libgoogle-gson-java 2.10.1-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-3 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-5 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.33-2 install ok installed libgtk2.0-common libgtk2.0-common 2.24.33-2 install ok installed libguava-java libguava-java 32.0.1-1 install ok installed libguice-java libguice-java 4.2.3-2 install ok installed libhamcrest-java libhamcrest-java 2.2-2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 8.0.1-1 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2 install ok installed libhtsjdk-java libhtsjdk-java 3.0.5+dfsg-2 install ok installed libhttpclient-java libhttpclient-java 4.5.14-1 install ok installed libhttpcore-java libhttpcore-java 4.4.16-1 install ok installed libicu72:amd64 libicu72 72.1-4 install ok installed libidn2-0:amd64 libidn2-0 2.3.4-1+b1 install ok installed libinchi1 libinchi1 1.03+dfsg-4+b2 install ok installed libistack-commons-java libistack-commons-java 3.0.6-5 install ok installed libitext5-java libitext5-java 5.5.13.3-2 install ok installed libjackson2-annotations-java libjackson2-annotations-java 2.14.0-1 install ok installed libjackson2-core-java libjackson2-core-java 2.14.1-1 install ok installed libjackson2-databind-java libjackson2-databind-java 2.14.0-1 install ok installed libjaxb-api-java libjaxb-api-java 2.3.1-1 install ok installed libjaxb-java libjaxb-java 2.3.0.1-10.1 install ok installed libjaxen-java libjaxen-java 1.1.6-4 install ok installed libjbig0:amd64 libjbig0 2.1-6.1 install ok installed libjgrapht-java libjgrapht-java 1.5.2-1 install ok installed libjgraphx-java libjgraphx-java 2.1.0.7-3 install ok installed libjheaps-java libjheaps-java 0.14-2 install ok installed libjmol-java libjmol-java 14.32.83+dfsg-3 install ok installed libjni-inchi-java libjni-inchi-java 0.8+dfsg-7 install ok installed libjni-inchi-jni libjni-inchi-jni 0.8+dfsg-7 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-2 install ok installed libjson-simple-java libjson-simple-java 2.3.0-1 install ok installed libjsoup-java libjsoup-java 1.15.3-1 install ok installed libjsr305-java libjsr305-java 0.1~+svn49-11 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-5 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-5 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-5 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-3 install ok installed libllvm15:amd64 libllvm15 1:15.0.7-10 install ok installed libllvm16:amd64 libllvm16 1:16.0.6-19 install ok installed liblog4j1.2-java liblog4j1.2-java 1.2.17-11 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.5-0.1 install ok installed libmaven-archiver-java libmaven-archiver-java 3.6.0-1 install ok installed libmaven-compiler-plugin-java libmaven-compiler-plugin-java 3.10.1-2 install ok installed libmaven-file-management-java libmaven-file-management-java 3.0.0-1 install ok installed libmaven-jar-plugin-java libmaven-jar-plugin-java 3.3.0-2 install ok installed libmaven-parent-java libmaven-parent-java 35-1 install ok installed libmaven-resolver-java libmaven-resolver-java 1.6.3-1 install ok installed libmaven-shared-incremental-java libmaven-shared-incremental-java 1.1-3 install ok installed libmaven-shared-io-java libmaven-shared-io-java 3.0.0-4 install ok installed libmaven-shared-utils-java libmaven-shared-utils-java 3.3.4-1 install ok installed libmaven3-core-java libmaven3-core-java 3.8.7-1 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.5-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.5-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.5-1 install ok installed libmd0:amd64 libmd0 1.1.0-1 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmmtf-java libmmtf-java 1.0.11-1 install ok installed libmount1:amd64 libmount1 2.39.2-6 install ok installed libmsgpack-java libmsgpack-java 0.9.6-1 install ok installed libnaga-java libnaga-java 3.0+svn80-5 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.0.3+dfsg-6 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.2+dfsg-2 install ok installed libnettle8:amd64 libnettle8 3.9.1-2 install ok installed libngs-java:amd64 libngs-java 3.0.3+dfsg-6 install ok installed libngs-jni:amd64 libngs-jni 3.0.3+dfsg-6 install ok installed libnspr4:amd64 libnspr4 2:4.35-1.1 install ok installed libnss3:amd64 libnss3 2:3.95-1 install ok installed libopentest4j-java libopentest4j-java 1.2.0-4 install ok installed libopentest4j-reporting-java libopentest4j-reporting-java 0.1.0-M1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.0-5 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-9.1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-9.1 install ok installed libpam-runtime libpam-runtime 1.5.2-9.1 install ok installed libpam0g:amd64 libpam0g 1.5.2-9.1 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.51.0+ds-3 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.51.0+ds-3 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.51.0+ds-3 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4 install ok installed libpcsclite1:amd64 libpcsclite1 2.0.1-1 install ok installed libpicocli-java libpicocli-java 4.6.2-2 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1 install ok installed libplexus-archiver-java libplexus-archiver-java 4.6.1-1 install ok installed libplexus-cipher-java libplexus-cipher-java 2.0-1 install ok installed libplexus-classworlds-java libplexus-classworlds-java 2.7.0-1 install ok installed libplexus-compiler-java libplexus-compiler-java 2.12.1-2 install ok installed libplexus-component-annotations-java libplexus-component-annotations-java 2.1.1-1 install ok installed libplexus-container-default-java libplexus-container-default-java 2.1.1-1 install ok installed libplexus-interpolation-java libplexus-interpolation-java 1.26-1 install ok installed libplexus-io-java libplexus-io-java 3.3.1-2 install ok installed libplexus-languages-java libplexus-languages-java 1.1.1-2 install ok installed libplexus-sec-dispatcher-java libplexus-sec-dispatcher-java 2.0-3 install ok installed libplexus-utils2-java libplexus-utils2-java 3.4.2-1 install ok installed libpng16-16:amd64 libpng16-16 1.6.40-2 install ok installed libqdox2-java libqdox2-java 2.0.3-1 install ok installed librelaxng-datatype-java librelaxng-datatype-java 1.0+ds1-3.1 install ok installed librhino-java librhino-java 1.7.14-2.1 install ok installed librngom-java librngom-java 2.3.0.1-10.1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-2 install ok installed libselinux1:amd64 libselinux1 3.5-1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1 install ok installed libsensors-config libsensors-config 1:3.6.0-8 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-8 install ok installed libsepol2:amd64 libsepol2 3.5-2 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.3.2-0.3 install ok installed libsisu-inject-java libsisu-inject-java 0.3.4-2 install ok installed libsisu-plexus-java libsisu-plexus-java 0.3.4-3 install ok installed libslf4j-java libslf4j-java 1.7.32-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.2-6 install ok installed libsnappy-java libsnappy-java 1.1.10.5-1 install ok installed libsnappy-jni libsnappy-jni 1.1.10.5-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.1.10-1 install ok installed libsnpeff-java libsnpeff-java 5.2.b+dfsg-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.44.2-1 install ok installed libss2:amd64 libss2 1.47.0-2+b1 install ok installed libssl3:amd64 libssl3 3.1.4-2 install ok installed libstax-ex-java libstax-ex-java 1.7.8-3 install ok installed libstdc++6:amd64 libstdc++6 13.2.0-7 install ok installed libstreambuffer-java libstreambuffer-java 1.5.4-1.1 install ok installed libsystemd0:amd64 libsystemd0 255~rc3-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3 install ok installed libthai-data libthai-data 0.1.29-1 install ok installed libthai0:amd64 libthai0 0.1.29-1 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-2 install ok installed libtinfo6:amd64 libtinfo6 6.4+20231121-1 install ok installed libtrove3-java libtrove3-java 3.0.3-5 install ok installed libtxw2-java libtxw2-java 2.3.0.1-10.1 install ok installed libudev1:amd64 libudev1 255~rc3-2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libunivocity-parsers-java libunivocity-parsers-java 2.9.1-1 install ok installed libuuid1:amd64 libuuid1 2.39.2-6 install ok installed libvecmath-java libvecmath-java 1.5.2-7 install ok installed libwagon-http-java libwagon-http-java 3.5.3-1 install ok installed libwagon-provider-api-java libwagon-provider-api-java 3.5.3-1 install ok installed libwebp7:amd64 libwebp7 1.3.2-0.3 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.7-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxbean-reflect-java libxbean-reflect-java 4.5-8 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.15-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.15-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.15-1 install ok installed libxcb-present0:amd64 libxcb-present0 1.15-1 install ok installed libxcb-randr0:amd64 libxcb-randr0 1.15-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.15-1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.1-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.6-1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxerces2-java libxerces2-java 2.12.2-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2 install ok installed libxi6:amd64 libxi6 2:1.8-1+b1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3 install ok installed libxml-commons-external-java libxml-commons-external-java 1.4.01-6 install ok installed libxml-commons-resolver1.1-java libxml-commons-resolver1.1-java 1.2-11 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.3 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.2-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1 install ok installed libxsom-java libxsom-java 2.3.0.1-10.1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2 install ok installed libxz-java libxz-java 1.9-1 install ok installed libz3-4:amd64 libz3-4 4.8.12-3.1 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-2 install ok installed login login 1:4.13+dfsg1-3 install ok installed logsave logsave 1.47.0-2+b1 install ok installed mawk mawk 1.3.4.20231102-1 install ok installed mount mount 2.39.2-6 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.2+dfsg-2 install ok installed ncurses-base ncurses-base 6.4+20231121-1 install ok installed ncurses-bin ncurses-bin 6.4+20231121-1 install ok installed openjdk-17-jre:amd64 openjdk-17-jre 17.0.9+9-2 install ok installed openjdk-17-jre-headless:amd64 openjdk-17-jre-headless 17.0.9+9-2 install ok installed openssl openssl 3.1.4-2 install ok installed passwd passwd 1:4.13+dfsg1-3 install ok installed perl-base perl-base 5.36.0-10 install ok installed sed sed 4.9-1 install ok installed shared-mime-info shared-mime-info 2.4-1 install ok installed snpeff snpeff 5.2.b+dfsg-1 install ok installed sysvinit-utils sysvinit-utils 3.08-3 install ok installed tar tar 1.34+dfsg-1.2 install ok installed tzdata tzdata 2023c-11 install ok installed usr-is-merged usr-is-merged 38 install ok installed util-linux util-linux 2.39.2-6 install ok installed util-linux-extra util-linux-extra 2.39.2-6 install ok installed x11-common x11-common 1:7.7+23 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg-3 1m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'remove', 'adwaita-icon-theme', 'ant', 'ant-optional', 'at-spi2-common', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'junit4', 'junit5', 'libactivation-java', 'libantlr4-runtime-java', 'libaopalliance-java', 'libapache-pom-java', 'libapfloat-java', 'libapiguardian-java', 'libargs4j-java', 'libasm-java', 'libasound2:amd64', 'libasound2-data', 'libatinject-jsr330-api-java', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbiojava6-java', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdi-api-java', 'libcharts4j-java', 'libciftools-java', 'libcodemodel-java', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-exec-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcommons-text-java', 'libcups2:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdistlib-java', 'libdom4j-java', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdtd-parser-java', 'libedit2:amd64', 'libelf1:amd64', 'liberror-prone-java', 'libexec-maven-plugin-java', 'libexpat1:amd64', 'libfastinfoset-java', 'libfastutil-java', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgeronimo-annotation-1.3-spec-java', 'libgeronimo-interceptor-3.0-spec-java', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libguava-java', 'libguice-java', 'libhamcrest-java', 'libharfbuzz0b:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libicu72:amd64', 'libinchi1', 'libistack-commons-java', 'libitext5-java', 'libjackson2-annotations-java', 'libjackson2-core-java', 'libjackson2-databind-java', 'libjaxb-api-java', 'libjaxb-java', 'libjaxen-java', 'libjbig0:amd64', 'libjgrapht-java', 'libjgraphx-java', 'libjheaps-java', 'libjmol-java', 'libjni-inchi-java', 'libjni-inchi-jni', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoup-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'libllvm16:amd64', 'liblog4j1.2-java', 'libmaven-archiver-java', 'libmaven-compiler-plugin-java', 'libmaven-file-management-java', 'libmaven-jar-plugin-java', 'libmaven-parent-java', 'libmaven-resolver-java', 'libmaven-shared-incremental-java', 'libmaven-shared-io-java', 'libmaven-shared-utils-java', 'libmaven3-core-java', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libmmtf-java', 'libmsgpack-java', 'libnaga-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopentest4j-java', 'libopentest4j-reporting-java', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpicocli-java', 'libpixman-1-0:amd64', 'libplexus-archiver-java', 'libplexus-cipher-java', 'libplexus-classworlds-java', 'libplexus-compiler-java', 'libplexus-component-annotations-java', 'libplexus-container-default-java', 'libplexus-interpolation-java', 'libplexus-io-java', 'libplexus-languages-java', 'libplexus-sec-dispatcher-java', 'libplexus-utils2-java', 'libpng16-16:amd64', 'libqdox2-java', 'librelaxng-datatype-java', 'librhino-java', 'librngom-java', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsisu-inject-java', 'libsisu-plexus-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsnpeff-java', 'libsqlite3-0:amd64', 'libstax-ex-java', 'libstreambuffer-java', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtrove3-java', 'libtxw2-java', 'libunivocity-parsers-java', 'libvecmath-java', 'libwagon-http-java', 'libwagon-provider-api-java', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxbean-reflect-java', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsom-java', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libz3-4:amd64', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'shared-mime-info', 'x11-common', 'snpeff'] 1m47.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adwaita-icon-theme ant ant-optional at-spi2-common ca-certificates ca-certificates-java default-jre default-jre-headless fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme java-common junit4 junit5 libactivation-java libantlr4-runtime-java libaopalliance-java libapache-pom-java libapfloat-java libapiguardian-java libargs4j-java libasm-java libasound2 libasound2-data libatinject-jsr330-api-java libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbiojava6-java libbrotli1 libbsd0 libcairo2 libcdi-api-java libcharts4j-java libciftools-java libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-compress-java libcommons-exec-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-parent-java libcommons-text-java libcups2 libdatrie1 libdbus-1-3 libdeflate0 libdistlib-java libdom4j-java libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libdtd-parser-java libedit2 libelf1 liberror-prone-java libexec-maven-plugin-java libexpat1 libfastinfoset-java libfastutil-java libfontconfig1 libfreemarker-java libfreetype6 libfribidi0 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgoogle-gson-java libgraphite2-3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtsjdk-java libhttpclient-java libhttpcore-java libicu72 libinchi1 libistack-commons-java libitext5-java libjackson2-annotations-java libjackson2-core-java libjackson2-databind-java libjaxb-api-java libjaxb-java libjaxen-java libjbig0 libjgrapht-java libjgraphx-java libjheaps-java libjmol-java libjni-inchi-java libjni-inchi-jni libjpeg62-turbo libjson-simple-java libjsoup-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 libllvm15 libllvm16 liblog4j1.2-java libmaven-archiver-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-jar-plugin-java libmaven-parent-java libmaven-resolver-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmmtf-java libmsgpack-java libnaga-java libncbi-ngs3 libncbi-vdb3 libngs-java libngs-jni libnspr4 libnss3 libopentest4j-java libopentest4j-reporting-java libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcsclite1 libpicocli-java libpixman-1-0 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libpng16-16 libqdox2-java librelaxng-datatype-java librhino-java librngom-java libsensors-config libsensors5 libsharpyuv0 libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsnpeff-java libsqlite3-0 libstax-ex-java libstreambuffer-java libthai-data libthai0 libtiff6 libtrove3-java libtxw2-java libunivocity-parsers-java libvecmath-java libwagon-http-java libwagon-provider-api-java libwebp7 libx11-6 libx11-data libx11-xcb1 libxau6 libxbean-reflect-java libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxi6 libxinerama1 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxrandr2 libxrender1 libxshmfence1 libxsom-java libxtst6 libxxf86vm1 libxz-java libz3-4 ncbi-vdb-data openjdk-17-jre openjdk-17-jre-headless openssl shared-mime-info snpeff x11-common 0 upgraded, 0 newly installed, 244 to remove and 0 not upgraded. After this operation, 781 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 ... 12865 files and directories currently installed.) Removing snpeff (5.2.b+dfsg-1) ... Removing default-jre (2:1.17-75) ... Removing openjdk-17-jre:amd64 (17.0.9+9-2) ... Removing libgtk2.0-0:amd64 (2.24.33-2) ... Removing adwaita-icon-theme (45.0-2) ... Removing libsnpeff-java (5.2.b+dfsg-1) ... Removing libbiojava6-java (6.1.0+dfsg-4) ... Removing libjaxb-java (2.3.0.1-10.1) ... Removing libtxw2-java (2.3.0.1-10.1) ... Removing libatk1.0-0:amd64 (2.50.0-1) ... Removing at-spi2-common (2.50.0-1) ... Removing junit5 (5.10.1-1) ... Removing junit4 (4.13.2-4) ... Removing default-jre-headless (2:1.17-75) ... Removing libpangocairo-1.0-0:amd64 (1.51.0+ds-3) ... Removing libpangoft2-1.0-0:amd64 (1.51.0+ds-3) ... Removing libpango-1.0-0:amd64 (1.51.0+ds-3) ... Removing fontconfig (2.14.2-6) ... Removing libcairo2:amd64 (1.18.0-1) ... Removing gtk-update-icon-cache (3.24.38-6) ... Removing hicolor-icon-theme (0.17-2) ... Removing libfastinfoset-java (1.2.12-3) ... Removing libstreambuffer-java (1.5.4-1.1) ... Removing libstax-ex-java (1.7.8-3) ... Removing libjaxb-api-java (2.3.1-1) ... Removing libjgrapht-java (1.5.2-1) ... Removing libantlr4-runtime-java (4.7.2-5) ... Removing libmmtf-java (1.0.11-1) ... Removing libmsgpack-java (0.9.6-1) ... Removing libjmol-java (14.32.83+dfsg-3) ... Removing libjni-inchi-java (0.8+dfsg-7) ... Removing libmaven-compiler-plugin-java (3.10.1-2) ... Removing libplexus-compiler-java (2.12.1-2) ... Removing libcommons-text-java (1.11.0-1) ... Removing libmaven-jar-plugin-java (3.3.0-2) ... Removing libdistlib-java (1.0-4) ... Removing libapfloat-java (1.11.0-1) ... Removing libapiguardian-java (1.1.2-1) ... Removing libplexus-languages-java (1.1.1-2) ... Removing libasm-java (9.5-1) ... Removing libgl1:amd64 (1.7.0-1) ... Removing libglx0:amd64 (1.7.0-1) ... Removing libglx-mesa0:amd64 (23.2.1-1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libgl1-mesa-dri:amd64 (23.2.1-1) ... Removing libllvm16:amd64 (1:16.0.6-19) ... Removing libcharts4j-java (1.3-4) ... Removing libciftools-java (5.0.2-1) ... Removing libmaven-archiver-java (3.6.0-1) ... Removing libhtsjdk-java (3.0.5+dfsg-2) ... Removing libexec-maven-plugin-java (3.1.0-1) ... Removing libcommons-exec-java (1.3-2) ... Removing libmaven-shared-incremental-java (1.1-3) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-lang-java (2.6-10) ... Removing libcommons-math-java (2.2-8) ... Removing libcommons-math3-java (3.6.1-3) ... Removing libthai0:amd64 (0.1.29-1) ... Removing libdatrie1:amd64 (0.2.13-2+b1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-3) ... Removing libtiff6:amd64 (4.5.1+git230720-2) ... Removing libdeflate0:amd64 (1.18-1) ... Removing libdrm-amdgpu1:amd64 (2.4.117-1) ... Removing libdrm-radeon1:amd64 (2.4.117-1) ... Removing libdrm-nouveau2:amd64 (2.4.117-1) ... Removing libdrm-intel1:amd64 (2.4.117-1) ... Removing libdtd-parser-java (1.2-1) ... Removing libelf1:amd64 (0.190-1) ... Removing libplexus-container-default-java (2.1.1-1) ... Removing libfastutil-java (8.5.12+dfsg-1) ... Removing libfreemarker-java (2.3.31-2) ... Removing libfribidi0:amd64 (1.0.13-3) ... Removing libgdk-pixbuf2.0-common (2.42.10+dfsg-3) ... Removing libgif7:amd64 (5.2.1-2.5) ... Removing libglapi-mesa:amd64 (23.2.1-1) ... Removing shared-mime-info (2.4-1) ... Removing libglvnd0:amd64 (1.7.0-1) ... Removing libgoogle-gson-java (2.10.1-1) ... Removing libgtk2.0-common (2.24.33-2) ... Removing libhamcrest-java (2.2-2) ... Removing libllvm15:amd64 (1:15.0.7-10) ... Removing libxml2:amd64 (2.9.14+dfsg-1.3) ... Removing libicu72:amd64 (72.1-4) ... Removing libjni-inchi-jni (0.8+dfsg-7) ... Removing libinchi1 (1.03+dfsg-4+b2) ... Removing libitext5-java (5.5.13.3-2) ... Removing libjackson2-databind-java (2.14.0-1) ... Removing libjackson2-annotations-java (2.14.0-1) ... Removing libjackson2-core-java (2.14.1-1) ... Removing libjbig0:amd64 (2.1-6.1) ... Removing libjgraphx-java (2.1.0.7-3) ... Removing libjheaps-java (0.14-2) ... Removing libjson-simple-java (2.3.0-1) ... Removing liblerc4:amd64 (4.0.0+ds-3) ... Removing liblog4j1.2-java (1.2.17-11) ... Removing libngs-java:amd64 (3.0.3+dfsg-6) ... Removing libngs-jni:amd64 (3.0.3+dfsg-6) ... Removing libncbi-ngs3:amd64 (3.0.3+dfsg-6) ... Removing libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Removing libmbedtls14:amd64 (2.28.5-1) ... Removing libmbedx509-1:amd64 (2.28.5-1) ... Removing libmbedcrypto7:amd64 (2.28.5-1) ... Removing libmjson-java (1.4.0-3) ... Removing libnaga-java (3.0+svn80-5) ... Removing libopentest4j-java (1.2.0-4) ... Removing libopentest4j-reporting-java (0.1.0-M1-2) ... Removing libpciaccess0:amd64 (0.17-3) ... Removing libpicocli-java (4.6.2-2) ... Removing libpixman-1-0:amd64 (0.42.2-1) ... Removing libqdox2-java (2.0.3-1) ... Removing libxsom-java (2.3.0.1-10.1) ... Removing librngom-java (2.3.0.1-10.1) ... Removing librelaxng-datatype-java (1.0+ds1-3.1) ... Removing librhino-java (1.7.14-2.1) ... Removing libsensors5:amd64 (1:3.6.0-8) ... Removing libsensors-config (1:3.6.0-8) ... Removing libwebp7:amd64 (1.3.2-0.3) ... Removing libsharpyuv0:amd64 (1.3.2-0.3) ... Removing libthai-data (0.1.29-1) ... Removing libtrove3-java (3.0.3-5) ... Removing libunivocity-parsers-java (2.9.1-1) ... Removing libvecmath-java (1.5.2-7) ... Removing libx11-xcb1:amd64 (2:1.8.7-1) ... Removing libxbean-reflect-java (4.5-8) ... Removing libxcb-dri2-0:amd64 (1.15-1) ... Removing libxcb-dri3-0:amd64 (1.15-1) ... Removing libxcb-glx0:amd64 (1.15-1) ... Removing libxcb-present0:amd64 (1.15-1) ... Removing libxcb-randr0:amd64 (1.15-1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libxcb-sync1:amd64 (1.15-1) ... Removing libxcb-xfixes0:amd64 (1.15-1) ... Removing libxcomposite1:amd64 (1:0.4.5-1) ... Removing libxcursor1:amd64 (1:1.2.1-1) ... Removing libxdamage1:amd64 (1:1.1.6-1) ... Removing libxerces2-java (2.12.2-1) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libxrandr2:amd64 (2:1.5.2-2+b1) ... Removing libxfixes3:amd64 (1:6.0.0-2) ... Removing libxi6:amd64 (2:1.8-1+b1) ... Removing libxinerama1:amd64 (2:1.1.4-3) ... Removing libxml-commons-external-java (1.4.01-6) ... Removing libxml-commons-resolver1.1-java (1.2-11) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libz3-4:amd64 (4.8.12-3.1) ... Removing ncbi-vdb-data (3.0.2+dfsg-2) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libedit2:amd64 (3.1-20230828-1) ... Removing libdrm2:amd64 (2.4.117-1) ... Removing libdrm-common (2.4.117-1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libx11-6:amd64 (2:1.8.7-1) ... Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.7-4) ... Removing libx11-data (2:1.8.7-1) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing libcodemodel-java (2.6+jaxb2.3.0.1-10.1) ... Removing libistack-commons-java (3.0.6-5) ... Removing ant-optional (1.10.14-1) ... Removing ant (1.10.14-1) ... Removing openjdk-17-jre-headless:amd64 (17.0.9+9-2) ... Removing ca-certificates-java (20230710) ... Removing ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libfontconfig1:amd64 (2.14.2-6) ... Removing fontconfig-config (2.14.2-6) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing java-common (0.75) ... Removing libactivation-java (1.2.0-2) ... Removing libmaven-file-management-java (3.0.0-1) ... Removing libmaven-shared-io-java (3.0.0-4) ... Removing libmaven3-core-java (3.8.7-1) ... Removing libguice-java (4.2.3-2) ... Removing libaopalliance-java (20070526-7) ... Removing libmaven-parent-java (35-1) ... Removing libargs4j-java (2.33-2) ... Removing libasound2:amd64 (1.2.10-1) ... Removing libasound2-data (1.2.10-1) ... Removing libplexus-sec-dispatcher-java (2.0-3) ... Removing libplexus-cipher-java (2.0-1) ... Removing libcups2:amd64 (2.4.7-1) ... Removing libavahi-client3:amd64 (0.8-13) ... Removing libavahi-common3:amd64 (0.8-13) ... Removing libavahi-common-data:amd64 (0.8-13) ... Removing libharfbuzz0b:amd64 (8.0.1-1) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1) ... Removing libbrotli1:amd64 (1.1.0-2) ... Removing libsisu-plexus-java (0.3.4-3) ... Removing libsisu-inject-java (0.3.4-2) ... Removing libcdi-api-java (1.2-3) ... Removing libcommons-cli-java (1.5.0-1) ... Removing libwagon-http-java (3.5.3-1) ... Removing libhttpclient-java (4.5.14-1) ... Removing libcommons-codec-java (1.15-1) ... Removing libplexus-archiver-java (4.6.1-1) ... Removing libcommons-compress-java (1.24.0-1) ... Removing libplexus-io-java (3.3.1-2) ... Removing libmaven-shared-utils-java (3.3.4-1) ... Removing libcommons-io-java (2.11.0-2) ... Removing libmaven-resolver-java (1.6.3-1) ... Removing libcommons-lang3-java (3.13.0-1) ... Removing libdbus-1-3:amd64 (1.14.10-3) ... Removing libdom4j-java (2.1.3-2) ... Removing liberror-prone-java (2.18.0-1) ... Removing libguava-java (32.0.1-1) ... Removing libexpat1:amd64 (2.5.0-2) ... Removing libgeronimo-annotation-1.3-spec-java (1.3-1) ... Removing libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Removing libglib2.0-0:amd64 (2.78.1-4) ... Removing libgraphite2-3:amd64 (1.3.14-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-5) ... Removing libhttpcore-java (4.4.16-1) ... Removing libjaxen-java (1.1.6-4) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-2) ... Removing libjsoup-java (1.15.3-1) ... Removing libjsr305-java (0.1~+svn49-11) ... Removing libkrb5-3:amd64 (1.20.1-5) ... Removing libk5crypto3:amd64 (1.20.1-5) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-5) ... Removing liblcms2-2:amd64 (2.14-2) ... Removing libnss3:amd64 (2:3.95-1) ... Removing libnspr4:amd64 (2:4.35-1.1) ... Removing libpcsclite1:amd64 (2.0.1-1) ... Removing libplexus-classworlds-java (2.7.0-1) ... Removing libplexus-component-annotations-java (2.1.1-1) ... Removing libplexus-interpolation-java (1.26-1) ... Removing libwagon-provider-api-java (3.5.3-1) ... Removing libplexus-utils2-java (3.4.2-1) ... Removing libpng16-16:amd64 (1.6.40-2) ... Removing libslf4j-java (1.7.32-1) ... Removing libsnappy-java (1.1.10.5-1) ... Removing libsnappy-jni (1.1.10.5-1) ... Removing libsnappy1v5:amd64 (1.1.10-1) ... Removing libsqlite3-0:amd64 (3.44.2-1) ... Removing libxz-java (1.9-1) ... Removing openssl (3.1.4-2) ... Removing libcommons-logging-java (1.2-4) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (29-2) ... Removing libatinject-jsr330-api-java (1.0+ds1-5) ... Processing triggers for libc-bin (2.37-12) ... 1m47.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'remove', 'adwaita-icon-theme', 'ant', 'ant-optional', 'at-spi2-common', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'junit4', 'junit5', 'libactivation-java', 'libantlr4-runtime-java', 'libaopalliance-java', 'libapache-pom-java', 'libapfloat-java', 'libapiguardian-java', 'libargs4j-java', 'libasm-java', 'libasound2:amd64', 'libasound2-data', 'libatinject-jsr330-api-java', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbiojava6-java', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdi-api-java', 'libcharts4j-java', 'libciftools-java', 'libcodemodel-java', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-exec-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcommons-text-java', 'libcups2:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdistlib-java', 'libdom4j-java', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdtd-parser-java', 'libedit2:amd64', 'libelf1:amd64', 'liberror-prone-java', 'libexec-maven-plugin-java', 'libexpat1:amd64', 'libfastinfoset-java', 'libfastutil-java', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgeronimo-annotation-1.3-spec-java', 'libgeronimo-interceptor-3.0-spec-java', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libguava-java', 'libguice-java', 'libhamcrest-java', 'libharfbuzz0b:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libicu72:amd64', 'libinchi1', 'libistack-commons-java', 'libitext5-java', 'libjackson2-annotations-java', 'libjackson2-core-java', 'libjackson2-databind-java', 'libjaxb-api-java', 'libjaxb-java', 'libjaxen-java', 'libjbig0:amd64', 'libjgrapht-java', 'libjgraphx-java', 'libjheaps-java', 'libjmol-java', 'libjni-inchi-java', 'libjni-inchi-jni', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoup-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'libllvm16:amd64', 'liblog4j1.2-java', 'libmaven-archiver-java', 'libmaven-compiler-plugin-java', 'libmaven-file-management-java', 'libmaven-jar-plugin-java', 'libmaven-parent-java', 'libmaven-resolver-java', 'libmaven-shared-incremental-java', 'libmaven-shared-io-java', 'libmaven-shared-utils-java', 'libmaven3-core-java', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libmmtf-java', 'libmsgpack-java', 'libnaga-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopentest4j-java', 'libopentest4j-reporting-java', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpicocli-java', 'libpixman-1-0:amd64', 'libplexus-archiver-java', 'libplexus-cipher-java', 'libplexus-classworlds-java', 'libplexus-compiler-java', 'libplexus-component-annotations-java', 'libplexus-container-default-java', 'libplexus-interpolation-java', 'libplexus-io-java', 'libplexus-languages-java', 'libplexus-sec-dispatcher-java', 'libplexus-utils2-java', 'libpng16-16:amd64', 'libqdox2-java', 'librelaxng-datatype-java', 'librhino-java', 'librngom-java', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsisu-inject-java', 'libsisu-plexus-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsnpeff-java', 'libsqlite3-0:amd64', 'libstax-ex-java', 'libstreambuffer-java', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtrove3-java', 'libtxw2-java', 'libunivocity-parsers-java', 'libvecmath-java', 'libwagon-http-java', 'libwagon-provider-api-java', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxbean-reflect-java', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsom-java', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libz3-4:amd64', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'shared-mime-info', 'x11-common', 'snpeff'] 1m47.3s INFO: Running scripts post_remove 1m47.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_remove_exceptions'] 1m47.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_remove_exceptions'] 1m47.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', 'adwaita-icon-theme', 'ant', 'ant-optional', 'at-spi2-common', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'junit4', 'junit5', 'libactivation-java', 'libantlr4-runtime-java', 'libaopalliance-java', 'libapache-pom-java', 'libapfloat-java', 'libapiguardian-java', 'libargs4j-java', 'libasm-java', 'libasound2:amd64', 'libasound2-data', 'libatinject-jsr330-api-java', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbiojava6-java', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdi-api-java', 'libcharts4j-java', 'libciftools-java', 'libcodemodel-java', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-exec-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcommons-text-java', 'libcups2:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdistlib-java', 'libdom4j-java', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdtd-parser-java', 'libedit2:amd64', 'libelf1:amd64', 'liberror-prone-java', 'libexec-maven-plugin-java', 'libexpat1:amd64', 'libfastinfoset-java', 'libfastutil-java', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgeronimo-annotation-1.3-spec-java', 'libgeronimo-interceptor-3.0-spec-java', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libguava-java', 'libguice-java', 'libhamcrest-java', 'libharfbuzz0b:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libicu72:amd64', 'libinchi1', 'libistack-commons-java', 'libitext5-java', 'libjackson2-annotations-java', 'libjackson2-core-java', 'libjackson2-databind-java', 'libjaxb-api-java', 'libjaxb-java', 'libjaxen-java', 'libjbig0:amd64', 'libjgrapht-java', 'libjgraphx-java', 'libjheaps-java', 'libjmol-java', 'libjni-inchi-java', 'libjni-inchi-jni', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoup-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'libllvm16:amd64', 'liblog4j1.2-java', 'libmaven-archiver-java', 'libmaven-compiler-plugin-java', 'libmaven-file-management-java', 'libmaven-jar-plugin-java', 'libmaven-parent-java', 'libmaven-resolver-java', 'libmaven-shared-incremental-java', 'libmaven-shared-io-java', 'libmaven-shared-utils-java', 'libmaven3-core-java', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libmmtf-java', 'libmsgpack-java', 'libnaga-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopentest4j-java', 'libopentest4j-reporting-java', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpicocli-java', 'libpixman-1-0:amd64', 'libplexus-archiver-java', 'libplexus-cipher-java', 'libplexus-classworlds-java', 'libplexus-compiler-java', 'libplexus-component-annotations-java', 'libplexus-container-default-java', 'libplexus-interpolation-java', 'libplexus-io-java', 'libplexus-languages-java', 'libplexus-sec-dispatcher-java', 'libplexus-utils2-java', 'libpng16-16:amd64', 'libqdox2-java', 'librelaxng-datatype-java', 'librhino-java', 'librngom-java', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsisu-inject-java', 'libsisu-plexus-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsnpeff-java', 'libsqlite3-0:amd64', 'libstax-ex-java', 'libstreambuffer-java', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtrove3-java', 'libtxw2-java', 'libunivocity-parsers-java', 'libvecmath-java', 'libwagon-http-java', 'libwagon-provider-api-java', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxbean-reflect-java', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsom-java', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libz3-4:amd64', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'shared-mime-info', 'x11-common'] 1m47.8s DUMP: (Reading database ... 5417 files and directories currently installed.) Purging configuration files for adwaita-icon-theme (45.0-2) ... dpkg: warning: ignoring request to remove ant which isn't installed dpkg: warning: ignoring request to remove ant-optional which isn't installed dpkg: warning: ignoring request to remove at-spi2-common which isn't installed Purging configuration files for ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20230710) ... dpkg: warning: ignoring request to remove default-jre which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for fontconfig (2.14.2-6) ... Purging configuration files for fontconfig-config (2.14.2-6) ... Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed Purging configuration files for java-common (0.75) ... dpkg: warning: ignoring request to remove junit4 which isn't installed dpkg: warning: ignoring request to remove junit5 which isn't installed dpkg: warning: ignoring request to remove libactivation-java which isn't installed dpkg: warning: ignoring request to remove libantlr4-runtime-java which isn't installed dpkg: warning: ignoring request to remove libaopalliance-java which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libapfloat-java which isn't installed dpkg: warning: ignoring request to remove libapiguardian-java which isn't installed dpkg: warning: ignoring request to remove libargs4j-java which isn't installed dpkg: warning: ignoring request to remove libasm-java which isn't installed dpkg: warning: ignoring request to remove libasound2 which isn't installed dpkg: warning: ignoring request to remove libasound2-data which isn't installed dpkg: warning: ignoring request to remove libatinject-jsr330-api-java which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0 which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libbiojava6-java which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcdi-api-java which isn't installed dpkg: warning: ignoring request to remove libcharts4j-java which isn't installed dpkg: warning: ignoring request to remove libciftools-java which isn't installed dpkg: warning: ignoring request to remove libcodemodel-java which isn't installed dpkg: warning: ignoring request to remove libcommons-cli-java which isn't installed dpkg: warning: ignoring request to remove libcommons-codec-java which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-exec-java which isn't installed dpkg: warning: ignoring request to remove libcommons-io-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-math-java which isn't installed dpkg: warning: ignoring request to remove libcommons-math3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libcommons-text-java which isn't installed dpkg: warning: ignoring request to remove libcups2 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdistlib-java which isn't installed dpkg: warning: ignoring request to remove libdom4j-java which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm-intel1 which isn't installed dpkg: warning: ignoring request to remove libdrm-nouveau2 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libdtd-parser-java which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libelf1 which isn't installed dpkg: warning: ignoring request to remove liberror-prone-java which isn't installed dpkg: warning: ignoring request to remove libexec-maven-plugin-java which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfastinfoset-java which isn't installed dpkg: warning: ignoring request to remove libfastutil-java which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreemarker-java which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed Purging configuration files for libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-3) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgeronimo-annotation-1.3-spec-java which isn't installed dpkg: warning: ignoring request to remove libgeronimo-interceptor-3.0-spec-java which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgl1 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (23.2.1-1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.78.1-4) ... dpkg: warning: ignoring request to remove libglvnd0 which isn't installed dpkg: warning: ignoring request to remove libglx-mesa0 which isn't installed dpkg: warning: ignoring request to remove libglx0 which isn't installed dpkg: warning: ignoring request to remove libgoogle-gson-java which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-5) ... Purging configuration files for libgtk2.0-0:amd64 (2.24.33-2) ... Purging configuration files for libgtk2.0-common (2.24.33-2) ... dpkg: warning: ignoring request to remove libguava-java which isn't installed dpkg: warning: ignoring request to remove libguice-java which isn't installed dpkg: warning: ignoring request to remove libhamcrest-java which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhtsjdk-java which isn't installed dpkg: warning: ignoring request to remove libhttpclient-java which isn't installed dpkg: warning: ignoring request to remove libhttpcore-java which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libinchi1 which isn't installed dpkg: warning: ignoring request to remove libistack-commons-java which isn't installed dpkg: warning: ignoring request to remove libitext5-java which isn't installed dpkg: warning: ignoring request to remove libjackson2-annotations-java which isn't installed dpkg: warning: ignoring request to remove libjackson2-core-java which isn't installed dpkg: warning: ignoring request to remove libjackson2-databind-java which isn't installed dpkg: warning: ignoring request to remove libjaxb-api-java which isn't installed dpkg: warning: ignoring request to remove libjaxb-java which isn't installed dpkg: warning: ignoring request to remove libjaxen-java which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjgrapht-java which isn't installed dpkg: warning: ignoring request to remove libjgraphx-java which isn't installed dpkg: warning: ignoring request to remove libjheaps-java which isn't installed dpkg: warning: ignoring request to remove libjmol-java which isn't installed dpkg: warning: ignoring request to remove libjni-inchi-java which isn't installed dpkg: warning: ignoring request to remove libjni-inchi-jni which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjson-simple-java which isn't installed dpkg: warning: ignoring request to remove libjsoup-java which isn't installed dpkg: warning: ignoring request to remove libjsr305-java 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 liblerc4 which isn't installed dpkg: warning: ignoring request to remove libllvm15 which isn't installed dpkg: warning: ignoring request to remove libllvm16 which isn't installed dpkg: warning: ignoring request to remove liblog4j1.2-java which isn't installed dpkg: warning: ignoring request to remove libmaven-archiver-java which isn't installed dpkg: warning: ignoring request to remove libmaven-compiler-plugin-java which isn't installed dpkg: warning: ignoring request to remove libmaven-file-management-java which isn't installed dpkg: warning: ignoring request to remove libmaven-jar-plugin-java which isn't installed dpkg: warning: ignoring request to remove libmaven-parent-java which isn't installed dpkg: warning: ignoring request to remove libmaven-resolver-java which isn't installed dpkg: warning: ignoring request to remove libmaven-shared-incremental-java which isn't installed dpkg: warning: ignoring request to remove libmaven-shared-io-java which isn't installed dpkg: warning: ignoring request to remove libmaven-shared-utils-java which isn't installed dpkg: warning: ignoring request to remove libmaven3-core-java which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmjson-java which isn't installed dpkg: warning: ignoring request to remove libmmtf-java which isn't installed dpkg: warning: ignoring request to remove libmsgpack-java which isn't installed dpkg: warning: ignoring request to remove libnaga-java which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni 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 libopentest4j-java which isn't installed dpkg: warning: ignoring request to remove libopentest4j-reporting-java which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libpicocli-java which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libplexus-archiver-java which isn't installed dpkg: warning: ignoring request to remove libplexus-cipher-java which isn't installed dpkg: warning: ignoring request to remove libplexus-classworlds-java which isn't installed dpkg: warning: ignoring request to remove libplexus-compiler-java which isn't installed dpkg: warning: ignoring request to remove libplexus-component-annotations-java which isn't installed dpkg: warning: ignoring request to remove libplexus-container-default-java which isn't installed dpkg: warning: ignoring request to remove libplexus-interpolation-java which isn't installed dpkg: warning: ignoring request to remove libplexus-io-java which isn't installed dpkg: warning: ignoring request to remove libplexus-languages-java which isn't installed dpkg: warning: ignoring request to remove libplexus-sec-dispatcher-java which isn't installed dpkg: warning: ignoring request to remove libplexus-utils2-java which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libqdox2-java which isn't installed dpkg: warning: ignoring request to remove librelaxng-datatype-java which isn't installed dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove librngom-java which isn't installed Purging configuration files for libsensors-config (1:3.6.0-8) ... dpkg: warning: ignoring request to remove libsensors5 which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsisu-inject-java which isn't installed dpkg: warning: ignoring request to remove libsisu-plexus-java which isn't installed dpkg: warning: ignoring request to remove libslf4j-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed Purging configuration files for libsnpeff-java (5.2.b+dfsg-1) ... dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libstax-ex-java which isn't installed dpkg: warning: ignoring request to remove libstreambuffer-java which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed dpkg: warning: ignoring request to remove libtrove3-java which isn't installed dpkg: warning: ignoring request to remove libtxw2-java which isn't installed dpkg: warning: ignoring request to remove libunivocity-parsers-java which isn't installed dpkg: warning: ignoring request to remove libvecmath-java which isn't installed dpkg: warning: ignoring request to remove libwagon-http-java which isn't installed dpkg: warning: ignoring request to remove libwagon-provider-api-java which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libx11-xcb1 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxbean-reflect-java which isn't installed dpkg: warning: ignoring request to remove libxcb-dri2-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-glx0 which isn't installed dpkg: warning: ignoring request to remove libxcb-present0 which isn't installed dpkg: warning: ignoring request to remove libxcb-randr0 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb-sync1 which isn't installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxerces2-java which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxml-commons-external-java which isn't installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-11) ... dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxsom-java which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libxz-java which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed dpkg: warning: ignoring request to remove openjdk-17-jre which isn't installed Purging configuration files for openjdk-17-jre-headless:amd64 (17.0.9+9-2) ... Purging configuration files for openssl (3.1.4-2) ... Purging configuration files for shared-mime-info (2.4-1) ... Purging configuration files for x11-common (1:7.7+23) ... dpkg: warning: while removing x11-common, directory '/etc/init.d' not empty so not removed 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', 'adwaita-icon-theme', 'ant', 'ant-optional', 'at-spi2-common', 'ca-certificates', 'ca-certificates-java', 'default-jre', 'default-jre-headless', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'java-common', 'junit4', 'junit5', 'libactivation-java', 'libantlr4-runtime-java', 'libaopalliance-java', 'libapache-pom-java', 'libapfloat-java', 'libapiguardian-java', 'libargs4j-java', 'libasm-java', 'libasound2:amd64', 'libasound2-data', 'libatinject-jsr330-api-java', 'libatk1.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libbiojava6-java', 'libbrotli1:amd64', 'libbsd0:amd64', 'libcairo2:amd64', 'libcdi-api-java', 'libcharts4j-java', 'libciftools-java', 'libcodemodel-java', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-compress-java', 'libcommons-exec-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-math-java', 'libcommons-math3-java', 'libcommons-parent-java', 'libcommons-text-java', 'libcups2:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdeflate0:amd64', 'libdistlib-java', 'libdom4j-java', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libdtd-parser-java', 'libedit2:amd64', 'libelf1:amd64', 'liberror-prone-java', 'libexec-maven-plugin-java', 'libexpat1:amd64', 'libfastinfoset-java', 'libfastutil-java', 'libfontconfig1:amd64', 'libfreemarker-java', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgeronimo-annotation-1.3-spec-java', 'libgeronimo-interceptor-3.0-spec-java', 'libgif7:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgoogle-gson-java', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk2.0-0:amd64', 'libgtk2.0-common', 'libguava-java', 'libguice-java', 'libhamcrest-java', 'libharfbuzz0b:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libicu72:amd64', 'libinchi1', 'libistack-commons-java', 'libitext5-java', 'libjackson2-annotations-java', 'libjackson2-core-java', 'libjackson2-databind-java', 'libjaxb-api-java', 'libjaxb-java', 'libjaxen-java', 'libjbig0:amd64', 'libjgrapht-java', 'libjgraphx-java', 'libjheaps-java', 'libjmol-java', 'libjni-inchi-java', 'libjni-inchi-jni', 'libjpeg62-turbo:amd64', 'libjson-simple-java', 'libjsoup-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libllvm15:amd64', 'libllvm16:amd64', 'liblog4j1.2-java', 'libmaven-archiver-java', 'libmaven-compiler-plugin-java', 'libmaven-file-management-java', 'libmaven-jar-plugin-java', 'libmaven-parent-java', 'libmaven-resolver-java', 'libmaven-shared-incremental-java', 'libmaven-shared-io-java', 'libmaven-shared-utils-java', 'libmaven3-core-java', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libmjson-java', 'libmmtf-java', 'libmsgpack-java', 'libnaga-java', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libopentest4j-java', 'libopentest4j-reporting-java', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpicocli-java', 'libpixman-1-0:amd64', 'libplexus-archiver-java', 'libplexus-cipher-java', 'libplexus-classworlds-java', 'libplexus-compiler-java', 'libplexus-component-annotations-java', 'libplexus-container-default-java', 'libplexus-interpolation-java', 'libplexus-io-java', 'libplexus-languages-java', 'libplexus-sec-dispatcher-java', 'libplexus-utils2-java', 'libpng16-16:amd64', 'libqdox2-java', 'librelaxng-datatype-java', 'librhino-java', 'librngom-java', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsisu-inject-java', 'libsisu-plexus-java', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsnpeff-java', 'libsqlite3-0:amd64', 'libstax-ex-java', 'libstreambuffer-java', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtrove3-java', 'libtxw2-java', 'libunivocity-parsers-java', 'libvecmath-java', 'libwagon-http-java', 'libwagon-provider-api-java', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxbean-reflect-java', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxsom-java', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libz3-4:amd64', 'ncbi-vdb-data', 'openjdk-17-jre:amd64', 'openjdk-17-jre-headless:amd64', 'openssl', 'shared-mime-info', 'x11-common'] 1m47.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', 'snpeff'] 1m47.8s DUMP: dpkg: warning: ignoring request to remove snpeff which isn't installed 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', 'snpeff'] 1m47.8s INFO: Running scripts post_purge 1m47.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_purge_exceptions'] 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_purge_exceptions'] 1m47.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', '--pending'] 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--purge', '--pending'] 1m47.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--remove', '--pending'] 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg', '--remove', '--pending'] 1m47.8s INFO: Running scripts post_test 1m47.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_test_exceptions'] 1m47.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'tmp/scripts/post_test_exceptions'] 1m47.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m48.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m48.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-divert', '--list'] 1m48.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib 1m48.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'dpkg-divert', '--list'] 1m48.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'clean'] 1m48.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplpdohf81', 'apt-get', 'clean'] 1m48.2s DEBUG: Recording chroot state 1m49.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/shm'] 1m49.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/shm'] 1m49.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/console'] 1m49.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/console'] 1m49.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/ptmx'] 1m49.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/ptmx'] 1m49.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts'] 1m49.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/dev/pts'] 1m49.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/proc'] 1m49.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplpdohf81/proc'] 1m49.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m49.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmplpdohf81'] 1m49.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmplpdohf81 1m49.4s INFO: PASS: Upgrading between Debian distributions. 1m49.4s INFO: PASS: All tests. 1m49.4s INFO: piuparts run ends. ret=0 End: 2023-11-28 21:56:15 GMT