Start: 2026-09-21 22:53:24 GMT [testing] Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.5-2 Installed-Size: 493 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.19.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.5-2), libgenomicsdb-jni (<< 1.5.5-2.1~) Description: sparse array storage library for genomics (Java library) Homepage: https://www.genomicsdb.org/ Description-md5: 6a43860137619ae15d009235c0ac2bc5 Section: java Priority: optional Filename: pool/main/g/genomicsdb/libgenomicsdb-java_1.5.5-2_all.deb Size: 409744 MD5sum: 7b092b28958fa56002a798ef943a9348 SHA256: ec2b5be8ba865e38d1373c4867614a96293eece3e1b58594e709285d92094c73 [sid] Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.5-3 Installed-Size: 492 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.22.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.5-3), libgenomicsdb-jni (<< 1.5.5-3.1~) Description: sparse array storage library for genomics (Java library) Homepage: https://www.genomicsdb.org/ Description-md5: 6a43860137619ae15d009235c0ac2bc5 Section: java Priority: optional Filename: pool/main/g/genomicsdb/libgenomicsdb-java_1.5.5-3_all.deb Size: 409744 MD5sum: 61cc944664c5954efef6761fe072226c SHA256: db316ca2a58a2f5e32c837668ab491105de388f2c5efcf1cadf8f88d9df4dc33 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/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/forky-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt libgenomicsdb-java=1.5.5-3 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 1.6.1~202608291513~1.6.0-23-g1172a6e5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/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/forky-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt libgenomicsdb-java=1.5.5-3 0m0.0s INFO: Running on: Linux piu-slave-conova-01 6.12.107+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.107-1 (2026-08-29) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpvsrj7u1b 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpvsrj7u1b 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/proc'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/16', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/16', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ forky main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpvsrj7u1b/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'update'] 0m2.4s DUMP: Get:1 http://deb.debian.org/debian forky InRelease [151 kB] Get:2 http://deb.debian.org/debian forky/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian forky/main Translation-en [6619 kB] Fetched 16.8 MB in 1s (14.1 MB/s) Reading package lists... 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'update'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-yf', 'dist-upgrade'] 0m3.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libpcre2-8-0 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 312 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://deb.debian.org/debian forky/main amd64 libpcre2-8-0 amd64 10.48-3 [312 kB] Fetched 312 kB in 0s (7988 kB/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 ... 4959 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.48-3_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.48-3) over (10.48-2) ... Setting up libpcre2-8-0:amd64 (10.48-3) ... Processing triggers for libselinux1:amd64 (3.11-2) ... Processing triggers for libc-bin (2.43-5) ... 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-yf', 'dist-upgrade'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.2s DUMP: e151952114acc80eca58b3d94419a645 - 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.2s INFO: Running scripts post_setup 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_dummy_users'] 0m4.9s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_dummy_users'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_forbid_home'] 0m4.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_forbid_home'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.0s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_minimize'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_minimize'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_zz_backports'] 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_setup_zz_backports'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.0s DUMP: install ok installed apt apt 3.3.3 install ok installed base-files base-files 14.2 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-4 install ok installed bsdutils bsdutils 1:2.42.3-1 install ok installed coreutils coreutils 9.10-1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.92 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.24 install ok installed diffutils diffutils 1:3.12-1 install ok installed dpkg dpkg 1.23.11 install ok installed findutils findutils 4.11.0-2 install ok installed gcc-16-base:amd64 gcc-16-base 16.2.0-2 install ok installed grep grep 3.12-1 install ok installed gzip gzip 1.14-1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.69+nmu1 install ok installed libacl1:amd64 libacl1 2.4.0-1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.3.3 install ok installed libattr1:amd64 libattr1 1:2.6.0-1 install ok installed libaudit-common libaudit-common 1:4.1.2-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.2-1+b2 install ok installed libblkid1:amd64 libblkid1 2.42.3-1 install ok installed libbsd0:amd64 libbsd0 0.12.2-3 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6+b2 install ok installed libc-bin libc-bin 2.43-5 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.43-5 install ok installed libc6:amd64 libc6 2.43-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.9.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.2+20251210-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libgcc-s1:amd64 libgcc-s1 16.2.0-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.4-1 install ok installed libmd0:amd64 libmd0 1.2.0-2 install ok installed libmount1:amd64 libmount1 2.42.3-1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-8 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-8 install ok installed libpam-runtime libpam-runtime 1.7.0-8 install ok installed libpam0g:amd64 libpam0g 1.7.0-8 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.48-3 install ok installed libseccomp2:amd64 libseccomp2 2.6.1-1+b1 install ok installed libselinux1:amd64 libselinux1 3.11-2 install ok installed libsemanage-common libsemanage-common 3.11-1 install ok installed libsemanage2:amd64 libsemanage2 3.11-1+b1 install ok installed libsepol2:amd64 libsepol2 3.11-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.42.3-1 install ok installed libssl3t64:amd64 libssl3t64 3.6.4-1 install ok installed libstdc++6:amd64 libstdc++6 16.2.0-2 install ok installed libsystemd0:amd64 libsystemd0 261.2-1 install ok installed libtinfo6:amd64 libtinfo6 6.6+20260608-2 install ok installed libudev1:amd64 libudev1 261.2-1 install ok installed libuuid1:amd64 libuuid1 2.42.3-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-4 install ok installed login login 1:4.16.0-2+really2.42.3-1 install ok installed login.defs login.defs 1:4.19.3-2 install ok installed mawk mawk 1.3.4.20260302-1 install ok installed mount mount 2.42.3-1 install ok installed ncurses-base ncurses-base 6.6+20260608-2 install ok installed ncurses-bin ncurses-bin 6.6+20260608-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.4-1 install ok installed passwd passwd 1:4.19.3-2 install ok installed perl-base perl-base 5.42.3-1 install ok installed sed sed 4.9-3 install ok installed sqv sqv 1.5.0-1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-5 install ok installed tzdata tzdata 2026c-1 install ok installed util-linux util-linux 2.42.3-1 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.0s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m5.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m5.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m5.4s INFO: Running scripts is_testable 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/is_testable_uninstallable'] 0m5.4s INFO: Running scripts pre_test 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_test_exceptions'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_test_root_password'] 0m5.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_test_root_password'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m5.8s DUMP: Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.5-2 Installed-Size: 493 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.19.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.5-2), libgenomicsdb-jni (<< 1.5.5-2.1~) Description-en: sparse array storage library for genomics (Java library) GenomicsDB is built on top of a htslib fork and an internal array storage system for importing, querying and transforming variant data. Variant data is sparse by nature (sparse relative to the whole genome) and using sparse array data stores is a perfect fit for storing such data. . The GenomicsDB stores variant data in a 2D array where: - Each column corresponds to a genomic position (chromosome + position); - Each row corresponds to a sample in a VCF (or CallSet in the GA4GH terminology); - Each cell contains data for a given sample/CallSet at a given position; data is stored in the form of cell attributes; - Cells are stored in column major order - this makes accessing cells with the same column index (i.e. data for a given genomic position over all samples) fast. - Variant interval/gVCF interval data is stored in a cell at the start of the interval. The END is stored as a cell attribute. For variant intervals (such as deletions and gVCF REF blocks), an additional cell is stored at the END value of the variant interval. When queried for a given genomic position, the query library performs an efficient sweep to determine all intervals that intersect with the queried position. . This package contains the Java library. Description-md5: 6a43860137619ae15d009235c0ac2bc5 Homepage: https://www.genomicsdb.org/ Section: java Priority: optional Filename: pool/main/g/genomicsdb/libgenomicsdb-java_1.5.5-2_all.deb Size: 409744 MD5sum: 7b092b28958fa56002a798ef943a9348 SHA256: ec2b5be8ba865e38d1373c4867614a96293eece3e1b58594e709285d92094c73 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m5.8s INFO: apt-cache knows about the following packages: libgenomicsdb-java 0m5.8s INFO: Running scripts pre_install 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m5.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian forky/main amd64 Packages release o=Debian,a=testing,n=forky,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m5.9s DUMP: libgenomicsdb-java: Installed: (none) Candidate: 1.5.5-2 Version table: 1.5.5-2 500 500 http://deb.debian.org/debian forky/main amd64 Packages 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m19.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: ca-certificates ca-certificates-java default-jre-headless ibverbs-providers java-common junit4 libamd-comgr3 libamdhip64-6 libapache-pom-java libatinject-jsr330-api-java libbrotli1 libcbor0.10 libclang-common-21-dev libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libcurl4t64 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 liberror-prone-java libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libezmorph-java libfabric1 libffi8 libfido2-1 libfmt10 libfuse3-4 libgenomicsdb-jni libgenomicsdb1 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhamcrest-java libhsa-runtime64-1 libhsakmt1 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libidn2-0 libjaxen-java libjpeg62-turbo libjson-java libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap2 liblightcouch-java libllvm21 liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libmunge2 libmuparserx4.0.12 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libnuma1 libopenmpi40 libpciaccess0 libpcsclite1 libpmix2t64 libprotobuf-java libprotobuf32t64 libprrte-bin libprrte3 libpsl5t64 libpsm2-2 librdmacm1t64 librhino-java libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libucc1 libucx0 libunistring5 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces2-java libxext6 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxnvctrl0 libxom-java libz3-4 libze1 mpi-default-bin ncbi-vdb-data ocl-icd-libopencl1 openjdk-25-jre-headless openmpi-bin openmpi-common openssh-client openssh-common openssl pci.ids systemd Suggested packages: default-jre libatinject-jsr330-api-java-doc libcommons-collections3-java-doc libcommons-collections4-java-doc libasm-java libxz-java libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java fuse3 libgoogle-gson-java-doc krb5-doc krb5-user picard-tools python3 libhwloc-contrib-plugins libdom4j-java libjdom1-java libjson-simple-doc libjsr305-java-doc liblcms2-utils libactivation-java libcommons-csv-java libconversant-disruptor-java libdisruptor-java libgeronimo-jms-1.1-spec-java libjackson2-dataformat-xml-java libjackson2-dataformat-yaml libjansi-java libjctools-java libjeromq-java libmail-java libwoodstox-java libngs-java-doc pcscd rhino libarchive13t64 libdw1t64 libfdisk1 libgcrypt20 libmicrohttpd12t64 libp11-kit0 libpwquality1 libqrencode4 libtss2-esys-3.0.2-0t64 libtss2-mu-4.0.1-0t64 libtss2-rc0t64 libtss2-tcti-device0t64 libxerces2-java-doc libxml-commons-resolver1.1-java-doc libxom-java-doc opencl-icd libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass systemd-container systemd-homed systemd-imds systemd-userdbd systemd-boot systemd-report systemd-resolved systemd-repart polkitd Recommended packages: libclang-rt-21-dev krb5-locales libldap-common libpmix-dev publicsuffix libsasl2-modules libapparmor1 libbpf1 libcryptsetup12 libkmod2 python3:any libcups2t64 libfontconfig1 libfreetype6 libharfbuzz0b libasound2t64 xauth default-dbus-system-bus | dbus-system-bus linux-sysctl-defaults systemd-timesyncd | time-daemon systemd-tpm systemd-cryptsetup libgcrypt20 The following NEW packages will be installed: ca-certificates ca-certificates-java default-jre-headless ibverbs-providers java-common junit4 libamd-comgr3 libamdhip64-6 libapache-pom-java libatinject-jsr330-api-java libbrotli1 libcbor0.10 libclang-common-21-dev libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libcurl4t64 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 liberror-prone-java libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libezmorph-java libfabric1 libffi8 libfido2-1 libfmt10 libfuse3-4 libgenomicsdb-java libgenomicsdb-jni libgenomicsdb1 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhamcrest-java libhsa-runtime64-1 libhsakmt1 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libidn2-0 libjaxen-java libjpeg62-turbo libjson-java libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap2 liblightcouch-java libllvm21 liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libmunge2 libmuparserx4.0.12 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libnuma1 libopenmpi40 libpciaccess0 libpcsclite1 libpmix2t64 libprotobuf-java libprotobuf32t64 libprrte-bin libprrte3 libpsl5t64 libpsm2-2 librdmacm1t64 librhino-java libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libucc1 libucx0 libunistring5 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces2-java libxext6 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxnvctrl0 libxom-java libz3-4 libze1 mpi-default-bin ncbi-vdb-data ocl-icd-libopencl1 openjdk-25-jre-headless openmpi-bin openmpi-common openssh-client openssh-common openssl pci.ids systemd 0 upgraded, 141 newly installed, 0 to remove and 0 not upgraded. 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forky/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get:45 http://deb.debian.org/debian forky/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:46 http://deb.debian.org/debian forky/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get:47 http://deb.debian.org/debian forky/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get:48 http://deb.debian.org/debian forky/main amd64 libcommons-codec-java all 1.22.0-1 [344 kB] Get:49 http://deb.debian.org/debian forky/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get:50 http://deb.debian.org/debian forky/main amd64 libcommons-io-java all 2.22.0-1 [570 kB] Get:51 http://deb.debian.org/debian forky/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get:52 http://deb.debian.org/debian forky/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get:53 http://deb.debian.org/debian forky/main amd64 libcommons-lang3-java all 3.20.0-1 [679 kB] Get:54 http://deb.debian.org/debian forky/main 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http://deb.debian.org/debian forky/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get:87 http://deb.debian.org/debian forky/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:88 http://deb.debian.org/debian forky/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get:89 http://deb.debian.org/debian forky/main amd64 libxom-java all 1.4.4-1 [177 kB] Get:90 http://deb.debian.org/debian forky/main amd64 libjson-java all 3.2.0+dfsg-2 [142 kB] Get:91 http://deb.debian.org/debian forky/main amd64 libmbedcrypto16 amd64 3.6.7-3 [367 kB] Get:92 http://deb.debian.org/debian forky/main amd64 libmbedx509-7 amd64 3.6.7-3 [157 kB] Get:93 http://deb.debian.org/debian forky/main amd64 libmbedtls21 amd64 3.6.7-3 [250 kB] Get:94 http://deb.debian.org/debian forky/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get:95 http://deb.debian.org/debian forky/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2+b1 [1180 kB] Get:96 http://deb.debian.org/debian forky/main amd64 libncbi-ngs3 amd64 3.2.1+dfsg-6+b3 [159 kB] Get:97 http://deb.debian.org/debian forky/main amd64 libngs-jni amd64 3.2.1+dfsg-6+b3 [23.2 kB] Get:98 http://deb.debian.org/debian forky/main amd64 libngs-java amd64 3.2.1+dfsg-6+b3 [110 kB] Get:99 http://deb.debian.org/debian forky/main amd64 librhino-java all 1.7.15.1-0.1 [1388 kB] Get:100 http://deb.debian.org/debian forky/main amd64 libsnappy1v5 amd64 1.2.2-2+b2 [29.0 kB] Get:101 http://deb.debian.org/debian forky/main amd64 libsnappy-jni amd64 1.1.10.8-1 [6548 B] Get:102 http://deb.debian.org/debian forky/main amd64 libsnappy-java all 1.1.10.8-1 [87.8 kB] Get:103 http://deb.debian.org/debian forky/main amd64 libhtsjdk-java all 5.0.0+dfsg-1 [1929 kB] Get:104 http://deb.debian.org/debian forky/main amd64 libjson-simple-java all 2.3.0-2 [61.7 kB] Get:105 http://deb.debian.org/debian forky/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get:106 http://deb.debian.org/debian forky/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get:107 http://deb.debian.org/debian forky/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get:108 http://deb.debian.org/debian forky/main amd64 libmongodb-java all 3.6.3-2.1 [1944 kB] Get:109 http://deb.debian.org/debian forky/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get:110 http://deb.debian.org/debian forky/main amd64 libprotobuf-java all 3.21.12-16 [1266 kB] Get:111 http://deb.debian.org/debian forky/main amd64 libgomp1 amd64 16.2.0-2 [151 kB] Get:112 http://deb.debian.org/debian forky/main amd64 libmuparserx4.0.12 amd64 4.0.12-2.1+b1 [202 kB] Get:113 http://deb.debian.org/debian forky/main amd64 libprotobuf32t64 amd64 3.21.12-16 [985 kB] Get:114 http://deb.debian.org/debian forky/main amd64 libhwloc15 amd64 2.14.0-2 [166 kB] Get:115 http://deb.debian.org/debian forky/main amd64 libmunge2 amd64 0.5.18-1 [18.8 kB] Get:116 http://deb.debian.org/debian forky/main amd64 pci.ids all 0.0~2026.07.21-1 [285 kB] Get:117 http://deb.debian.org/debian forky/main amd64 libpciaccess0 amd64 0.19-2 [18.5 kB] Get:118 http://deb.debian.org/debian forky/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Get:119 http://deb.debian.org/debian forky/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Get:120 http://deb.debian.org/debian forky/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Get:121 http://deb.debian.org/debian forky/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Get:122 http://deb.debian.org/debian forky/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Get:123 http://deb.debian.org/debian forky/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Get:124 http://deb.debian.org/debian forky/main amd64 libxnvctrl0 amd64 535.171.04-1+b3 [14.1 kB] Get:125 http://deb.debian.org/debian forky/main amd64 libze1 amd64 1.32.0-1 [648 kB] Get:126 http://deb.debian.org/debian forky/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1+b1 [42.8 kB] Get:127 http://deb.debian.org/debian forky/main amd64 libhwloc-plugins amd64 2.14.0-2 [21.7 kB] Get:128 http://deb.debian.org/debian forky/main amd64 libpmix2t64 amd64 6.0.0+really5.0.9-3+b2 [670 kB] Get:129 http://deb.debian.org/debian forky/main amd64 libibumad3 amd64 64.0-1 [29.6 kB] Get:130 http://deb.debian.org/debian forky/main amd64 libibmad5 amd64 64.0-1 [44.2 kB] Get:131 http://deb.debian.org/debian forky/main amd64 libucx0 amd64 1.22.0-1 [1064 kB] Get:132 http://deb.debian.org/debian forky/main amd64 libucc1 amd64 1.9.0-1 [379 kB] Get:133 http://deb.debian.org/debian forky/main amd64 libopenmpi40 amd64 5.0.10-1 [2018 kB] Get:134 http://deb.debian.org/debian forky/main amd64 openmpi-common all 5.0.10-1 [30.3 kB] Get:135 http://deb.debian.org/debian forky/main amd64 libprrte3 amd64 3.0.13-3 [451 kB] Get:136 http://deb.debian.org/debian forky/main amd64 libprrte-bin amd64 3.0.13-3 [51.9 kB] Get:137 http://deb.debian.org/debian forky/main amd64 openmpi-bin amd64 5.0.10-1 [154 kB] Get:138 http://deb.debian.org/debian forky/main amd64 mpi-default-bin amd64 1.20 [2720 B] Get:139 http://deb.debian.org/debian forky/main amd64 libgenomicsdb1 amd64 1.5.5-2 [1640 kB] Get:140 http://deb.debian.org/debian forky/main amd64 libgenomicsdb-jni amd64 1.5.5-2 [86.8 kB] Get:141 http://deb.debian.org/debian forky/main amd64 libgenomicsdb-java all 1.5.5-2 [410 kB] Preconfiguring packages ... Fetched 168 MB in 1s (159 MB/s) Selecting previously unselected package libsystemd-shared: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 ... 4963 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_261.2-1_amd64.deb ... Unpacking libsystemd-shared:amd64 (261.2-1) ... Setting up libsystemd-shared:amd64 (261.2-1) ... Selecting previously unselected package systemd. (Reading database ... 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Setting up libibumad3:amd64 (64.0-1) ... Setting up systemd (261.2-1) ... Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' → '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' → '/usr/lib/systemd/system/systemd-pstore.service'. Created symlink '/etc/systemd/system/autovt@.service' → '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' → '/usr/lib/systemd/system/getty@.service'. Initializing machine ID from random generator. Creating group 'lpadmin' with GID 999. Creating group 'systemd-journal' with GID 998. Creating group 'systemd-network' with GID 997. Creating user 'systemd-network' (systemd Network Management) with UID 997 and GID 997. [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Setting up libibmad5:amd64 (64.0-1) ... Setting up libcom-err2:amd64 (1.47.4-1+b1) ... Setting up libjson-simple-java (2.3.0-2) ... Setting up libgomp1:amd64 (16.2.0-2) ... Setting up libze1:amd64 (1.32.0-1) ... Setting up libelf1t64:amd64 (0.196-1) ... Setting up libsnappy1v5:amd64 (1.2.2-2+b2) ... Setting up libkrb5support0:amd64 (1.22.1-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-11) ... Setting up libcommons-collections3-java (3.2.2-3) ... Setting up librhino-java (1.7.15.1-0.1) ... Setting up libz3-4:amd64 (4.13.3-1.1) ... Setting up libmunge2:amd64 (0.5.18-1) ... Setting up libjpeg62-turbo:amd64 (1:3.1.3-4) ... Setting up libjaxen-java (1.2.0-1) ... Setting up libx11-data (2:1.8.13-1) ... Setting up libnspr4:amd64 (2:4.40-1) ... Setting up libapache-pom-java (33-2) ... Setting up libatinject-jsr330-api-java (1.0+ds1-6) ... Setting up libunistring5:amd64 (1.4.2-1) ... Setting up libhwloc15:amd64 (2.14.0-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libpcsclite1:amd64 (2.5.1-1) ... Setting up libmongodb-java (3.6.3-2.1) ... Setting up libk5crypto3:amd64 (1.22.1-3) ... Setting up libhamcrest-java (2.2-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-11) ... Setting up libnghttp3-9:amd64 (1.17.0-1) ... Setting up libffi8:amd64 (3.8.0-2) ... Setting up libnuma1:amd64 (2.0.19-1+b2) ... Setting up ocl-icd-libopencl1:amd64 (2.3.4-1+b1) ... Setting up libxml-commons-external-java (1.4.01-6) ... Setting up libnl-3-200:amd64 (3.12.0-2+b1) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up openmpi-common (5.0.10-1) ... Setting up libx11-6:amd64 (2:1.8.13-1) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up libngtcp2-16:amd64 (1.24.0-1) ... Setting up libkrb5-3:amd64 (1.22.1-3) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.13-stable-1) ... Setting up libmbedcrypto16:amd64 (3.6.7-3) ... Setting up libclang-common-21-dev:amd64 (1:21.1.8-10) ... Setting up libssh2-1t64:amd64 (1.11.1-6) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libfuse3-4:amd64 (3.18.3-1) ... Setting up libxerces2-java (2.12.2-1) ... Setting up libfido2-1:amd64 (1.17.0-2) ... Setting up openssl (3.6.4-1) ... Setting up libdrm-common (2.4.134-3) ... Setting up libsnappy-jni (1.1.10.8-1) ... Setting up libezmorph-java (1.0.6-4) ... Setting up libldap2:amd64 (2.6.14+dfsg-2) ... Setting up libfmt10:amd64 (10.1.1+ds1-4+b2) ... Setting up libpciaccess0:amd64 (0.19-2) ... Setting up openssh-common (1:10.5p1-1) ... Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.13-stable-1) ... Setting up openssh-client (1:10.5p1-1) ... Creating group '_ssh' with GID 996. Created symlink '/etc/systemd/user/sockets.target.wants/ssh-agent.socket' → '/usr/lib/systemd/user/ssh-agent.socket'. Setting up libcommons-parent-java (56-1) ... Setting up libcommons-logging-java (1.3.0-2) ... Setting up libxext6:amd64 (2:1.3.4-1+b4) ... Setting up libidn2-0:amd64 (2.3.8-5) ... Setting up libnss3:amd64 (2:3.129-1) ... Setting up libxom-java (1.4.4-1) ... Setting up libnl-route-3-200:amd64 (3.12.0-2+b1) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b3) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up ca-certificates (20260816) ... Updating certificates in /etc/ssl/certs... 121 added, 0 removed; done. Setting up libmbedx509-7:amd64 (3.6.7-3) ... Setting up libllvm21:amd64 (1:21.1.8-10) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-3) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.24.0-1) ... Setting up libcommons-lang3-java (3.20.0-1) ... Setting up libmbedtls21:amd64 (3.6.7-3) ... Setting up libdrm2:amd64 (2.4.134-3) ... Setting up libamd-comgr3:amd64 (7.0.2+dfsg-3) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libsnappy-java (1.1.10.8-1) ... Setting up ca-certificates-java (20260311) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-codec-java (1.22.0-1) ... Setting up libdrm-amdgpu1:amd64 (2.4.134-3) ... Setting up libibverbs1:amd64 (64.0-1) ... Creating group 'rdma' with GID 995. Setting up ibverbs-providers:amd64 (64.0-1) ... Setting up libcommons-io-java (2.22.0-1) ... Setting up openjdk-25-jre-headless:amd64 (25.0.4.1+1-1) ... update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-25-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libpsl5t64:amd64 (0.23.3-1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2+b1) ... Setting up libhwloc-plugins:amd64 (2.14.0-2) ... Setting up libpmix2t64:amd64 (6.0.0+really5.0.9-3+b2) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up librdmacm1t64:amd64 (64.0-1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libhsakmt1:amd64 (6.4.3+dfsg-4) ... Setting up libncbi-ngs3:amd64 (3.2.1+dfsg-6+b3) ... Setting up libfabric1:amd64 (2.1.0-1.1+b2) ... Setting up libngs-jni:amd64 (3.2.1+dfsg-6+b3) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcurl4t64:amd64 (8.22.0-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libprrte3:amd64 (3.0.13-3) ... Setting up libhsa-runtime64-1:amd64 (6.4.3+dfsg-4) ... Setting up libngs-java:amd64 (3.2.1+dfsg-6+b3) ... Setting up libprrte-bin (3.0.13-3) ... Setting up libamdhip64-6:amd64 (6.4.3-4+b1) ... Setting up libucx0:amd64 (1.22.0-1) ... Setting up libucc1:amd64 (1.9.0-1) ... Setting up libopenmpi40:amd64 (5.0.10-1) ... Setting up openmpi-bin (5.0.10-1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) does not exist update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up mpi-default-bin (1.20) ... Setting up libgenomicsdb1 (1.5.5-2) ... Setting up libgenomicsdb-jni (1.5.5-2) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libguava-java (32.0.1-1) ... Setting up libprotobuf-java (3.21.12-16) ... Processing triggers for libc-bin (2.43-5) ... Processing triggers for ca-certificates-java (20260311) ... 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: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_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.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_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_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:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.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_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.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:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GTS_Root_R1.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_-_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_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_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_Server_Root_ECC_G1.pem Adding debian:OISTE_Server_Root_RSA_G1.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_G3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SECOM_TLS_ECC_Root_CA_2024.pem Adding debian:SECOM_TLS_RSA_Root_CA_2024.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:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_RSA_TLS_Root_CA_2022_-_1.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_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:Telia_EC_TLS_Root_CA_v3.pem Adding debian:Telia_RSA_TLS_Root_CA_v3.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:TrustAsia_TLS_ECC_Root_CA.pem Adding debian:TrustAsia_TLS_RSA_Root_CA.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:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:e-Szigno_TLS_Root_CA_2023.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up default-jre-headless (2:1.25-77) ... Setting up junit4 (4.13.2-6) ... Setting up libjson-java (3.2.0+dfsg-2) ... Setting up libhtsjdk-java (5.0.0+dfsg-1) ... Setting up libgenomicsdb-java (1.5.5-2) ... Processing triggers for ca-certificates (20260816) ... 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 (20260311) ... done. 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m19.5s INFO: Running scripts post_install 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m19.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m20.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m20.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpvsrj7u1b to sid 0m20.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m20.0s INFO: Running scripts pre_distupgrade 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_exceptions'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_exceptions'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'update'] 0m23.4s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [193 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.8 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7731 kB] Fetched 18.7 MB in 2s (8536 kB/s) Reading package lists... 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'update'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-yf', 'dist-upgrade'] 0m32.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libhsakmt1 libmunge2 libprrte3 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libesmtp6 libgdbm-compat4t64 libgdbm6t64 libperl5.42 libprrte4 perl perl-modules-5.42 prrte-common The following packages will be upgraded: gcc-16-base ibverbs-providers init-system-helpers libamdhip64-6 libaudit-common libaudit1 libc-bin libc-gconv-modules-extra libc6 libclang-common-21-dev libcommons-codec-java libgcc-s1 libgenomicsdb-java libgenomicsdb-jni libgenomicsdb1 libgomp1 libhsa-runtime64-1 libibmad5 libibumad3 libibverbs1 libllvm21 libopenmpi40 libpcsclite1 libpmix2t64 libprrte-bin librdmacm1t64 libsnappy1v5 libstdc++6 libsystemd-shared libsystemd0 libudev1 libxom-java openjdk-25-jre-headless openmpi-bin openmpi-common systemd tar 37 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 121 MB of archives. After this operation, 54.8 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-6 [825 kB] Get:2 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.69+nmu2 [37.2 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libc-gconv-modules-extra amd64 2.43-6 [1096 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.43-6 [1867 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 16.2.0-3 [151 kB] Get:6 http://deb.debian.org/debian sid/main amd64 gcc-16-base amd64 16.2.0-3 [38.7 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 16.2.0-3 [74.0 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 16.2.0-3 [823 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.43-6 [620 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libsystemd-shared amd64 262~rc3-1 [2790 kB] Get:11 http://deb.debian.org/debian sid/main amd64 systemd amd64 262~rc3-1 [3480 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 262~rc3-1 [512 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.2.1-1 [13.3 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.2.1-1 [59.6 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 262~rc3-1 [148 kB] Get:16 http://deb.debian.org/debian sid/main amd64 perl-modules-5.42 all 5.42.3-1 [3213 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.26-1+b2 [77.7 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.26-1+b2 [52.0 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libperl5.42 amd64 5.42.3-1 [4272 kB] Get:20 http://deb.debian.org/debian sid/main amd64 perl amd64 5.42.3-1 [266 kB] Get:21 http://deb.debian.org/debian sid/main amd64 ibverbs-providers amd64 65.0-1 [424 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libibverbs1 amd64 65.0-1 [67.9 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libhsa-runtime64-1 amd64 6.4.3+dfsg-5 [678 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libamdhip64-6 amd64 6.4.3-5 [9385 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libclang-common-21-dev amd64 1:21.1.8-13 [769 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libcommons-codec-java all 1.22.1-1 [346 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libesmtp6 amd64 1.1.0-3.2+b2 [59.3 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libgenomicsdb-java all 1.5.5-3 [410 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgenomicsdb-jni amd64 1.5.5-3 [103 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libgenomicsdb1 amd64 1.5.5-3 [1699 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libibumad3 amd64 65.0-1 [29.6 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libibmad5 amd64 65.0-1 [44.2 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libllvm21 amd64 1:21.1.8-13 [28.3 MB] Get:34 http://deb.debian.org/debian sid/main amd64 libpmix2t64 amd64 7.0.0~git.20260918-1 [832 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libopenmpi40 amd64 5.0.11-2 [2106 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libpcsclite1 amd64 2.5.2-1 [56.7 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libprrte4 amd64 5.0.0~git.20260918.1-2 [711 kB] Get:38 http://deb.debian.org/debian sid/main amd64 prrte-common all 5.0.0~git.20260918.1-2 [50.2 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libprrte-bin amd64 5.0.0~git.20260918.1-2 [42.4 kB] Get:40 http://deb.debian.org/debian sid/main amd64 librdmacm1t64 amd64 65.0-1 [79.0 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libsnappy1v5 amd64 1.3.1-1 [32.0 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libxom-java all 1.4.6-1 [177 kB] Get:43 http://deb.debian.org/debian sid/main amd64 openjdk-25-jre-headless amd64 25.0.5~6ea-1 [54.0 MB] Get:44 http://deb.debian.org/debian sid/main amd64 openmpi-common all 5.0.11-2 [31.4 kB] Get:45 http://deb.debian.org/debian sid/main amd64 openmpi-bin amd64 5.0.11-2 [182 kB] Preconfiguring packages ... 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Setting up libibumad3:amd64 (65.0-1) ... Setting up systemd (262~rc3-1) ... [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Setting up libesmtp6:amd64 (1.1.0-3.2+b2) ... Setting up libibmad5:amd64 (65.0-1) ... Setting up libxom-java (1.4.6-1) ... Setting up libgomp1:amd64 (16.2.0-3) ... Setting up libsnappy1v5:amd64 (1.3.1-1) ... Setting up libllvm21:amd64 (1:21.1.8-13) ... Setting up libpcsclite1:amd64 (2.5.2-1) ... Setting up libgenomicsdb1 (1.5.5-3) ... Setting up libpmix2t64:amd64 (7.0.0~git.20260918-1) ... Setting up libhsa-runtime64-1:amd64 (6.4.3+dfsg-5) ... Setting up openmpi-common (5.0.11-2) ... Setting up libclang-common-21-dev:amd64 (1:21.1.8-13) ... Setting up perl-modules-5.42 (5.42.3-1) ... Setting up libcommons-codec-java (1.22.1-1) ... Setting up prrte-common (5.0.0~git.20260918.1-2) ... Setting up libopenmpi40:amd64 (5.0.11-2) ... Setting up libibverbs1:amd64 (65.0-1) ... Setting up libprrte4:amd64 (5.0.0~git.20260918.1-2) ... Setting up ibverbs-providers:amd64 (65.0-1) ... Setting up openjdk-25-jre-headless:amd64 (25.0.5~6ea-1) ... Installing new version of config file /etc/java-25-openjdk/security/java.security ... Setting up libperl5.42:amd64 (5.42.3-1) ... Setting up perl (5.42.3-1) ... Setting up libgenomicsdb-jni (1.5.5-3) ... Setting up libamdhip64-6:amd64 (6.4.3-5) ... Setting up librdmacm1t64:amd64 (65.0-1) ... Setting up libprrte-bin (5.0.0~git.20260918.1-2) ... Setting up libgenomicsdb-java (1.5.5-3) ... Setting up openmpi-bin (5.0.11-2) ... Installing new version of config file /etc/openmpi/openmpi-mca-params.conf ... update-alternatives: warning: forcing reinstallation of alternative /usr/bin/mpirun.openmpi because link group mpirun is broken Processing triggers for libc-bin (2.43-6) ... Processing triggers for ca-certificates-java (20260311) ... done. 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-yf', 'dist-upgrade'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m32.9s DUMP: af2e57e5ba40612d4dc20caa5d8fac3c - 0m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m33.2s DUMP: Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.5-3 Installed-Size: 492 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.22.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.5-3), libgenomicsdb-jni (<< 1.5.5-3.1~) Description-en: sparse array storage library for genomics (Java library) GenomicsDB is built on top of a htslib fork and an internal array storage system for importing, querying and transforming variant data. Variant data is sparse by nature (sparse relative to the whole genome) and using sparse array data stores is a perfect fit for storing such data. . The GenomicsDB stores variant data in a 2D array where: - Each column corresponds to a genomic position (chromosome + position); - Each row corresponds to a sample in a VCF (or CallSet in the GA4GH terminology); - Each cell contains data for a given sample/CallSet at a given position; data is stored in the form of cell attributes; - Cells are stored in column major order - this makes accessing cells with the same column index (i.e. data for a given genomic position over all samples) fast. - Variant interval/gVCF interval data is stored in a cell at the start of the interval. The END is stored as a cell attribute. For variant intervals (such as deletions and gVCF REF blocks), an additional cell is stored at the END value of the variant interval. When queried for a given genomic position, the query library performs an efficient sweep to determine all intervals that intersect with the queried position. . This package contains the Java library. Description-md5: 6a43860137619ae15d009235c0ac2bc5 Homepage: https://www.genomicsdb.org/ Section: java Priority: optional Filename: pool/main/g/genomicsdb/libgenomicsdb-java_1.5.5-3_all.deb Size: 409744 MD5sum: 61cc944664c5954efef6761fe072226c SHA256: db316ca2a58a2f5e32c837668ab491105de388f2c5efcf1cadf8f88d9df4dc33 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m33.2s INFO: apt-cache knows about the following packages: libgenomicsdb-java 0m33.2s INFO: Running scripts pre_install 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m33.3s 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: 0m33.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m33.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m33.3s DUMP: libgenomicsdb-java: Installed: 1.5.5-3 Candidate: 1.5.5-3 Version table: *** 1.5.5-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m33.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m33.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m34.1s DUMP: Reading package lists... Building dependency tree... Reading state information... libgenomicsdb-java is already the newest version (1.5.5-3). Solving dependencies... The following packages were automatically installed and are no longer required: libhsakmt1 libmunge2 libprrte3 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m34.1s INFO: Running scripts post_install 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m34.1s INFO: Running scripts post_distupgrade 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_exceptions'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_exceptions'] 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m34.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_zz_backports'] 0m34.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_distupgrade_zz_backports'] 0m34.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m34.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m34.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m35.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m35.4s INFO: Running scripts pre_install 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_database-server'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_exceptions'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_extras'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m35.4s 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: 0m35.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy'] 0m35.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m35.5s DUMP: libgenomicsdb-java: Installed: 1.5.5-3 Candidate: 1.5.5-3 Version table: *** 1.5.5-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m35.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m35.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java=1.5.5-3'] 0m36.3s DUMP: Reading package lists... Building dependency tree... Reading state information... libgenomicsdb-java is already the newest version (1.5.5-3). Solving dependencies... The following packages were automatically installed and are no longer required: libhsakmt1 libmunge2 libprrte3 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m36.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', '-y', 'install', 'libgenomicsdb-java=1.5.5-3'] 0m36.3s INFO: Running scripts post_install 0m36.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m36.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_install_exceptions'] 0m36.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m37.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m37.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', '-ac', '--ignore-obsolete'] 0m40.0s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', '-ac', '--ignore-obsolete'] 0m40.0s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m40.0s DUMP: 0.17.5+b5 0m40.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m40.0s INFO: Running adequate version 0.17.5+b5 now. 0m40.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'libgenomicsdb-java'] 0m40.1s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'libgenomicsdb-java'] 0m40.1s INFO: Running scripts pre_remove 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m42.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m42.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m42.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m42.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_exceptions'] 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/pre_remove_exceptions'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m42.4s DUMP: install ok installed apt apt 3.3.3 install ok installed base-files base-files 14.2 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-4 install ok installed bsdutils bsdutils 1:2.42.3-1 install ok installed ca-certificates ca-certificates 20260816 install ok installed ca-certificates-java ca-certificates-java 20260311 install ok installed coreutils coreutils 9.10-1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.92 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.24 install ok installed default-jre-headless default-jre-headless 2:1.25-77 install ok installed diffutils diffutils 1:3.12-1 install ok installed dpkg dpkg 1.23.11 install ok installed findutils findutils 4.11.0-2 install ok installed gcc-16-base:amd64 gcc-16-base 16.2.0-3 install ok installed grep grep 3.12-1 install ok installed gzip gzip 1.14-1 install ok installed hostname hostname 3.25 install ok installed ibverbs-providers:amd64 ibverbs-providers 65.0-1 install ok installed init-system-helpers init-system-helpers 1.69+nmu2 install ok installed java-common java-common 0.77 install ok installed junit4 junit4 4.13.2-6 install ok installed libacl1:amd64 libacl1 2.4.0-1 install ok installed libamd-comgr3:amd64 libamd-comgr3 7.0.2+dfsg-3 install ok installed libamdhip64-6:amd64 libamdhip64-6 6.4.3-5 install ok installed libapache-pom-java libapache-pom-java 33-2 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.3.3 install ok installed libatinject-jsr330-api-java libatinject-jsr330-api-java 1.0+ds1-6 install ok installed libattr1:amd64 libattr1 1:2.6.0-1 install ok installed libaudit-common libaudit-common 1:4.2.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.2.1-1 install ok installed libblkid1:amd64 libblkid1 2.42.3-1 install ok installed libbrotli1:amd64 libbrotli1 1.2.0-4+b1 install ok installed libbsd0:amd64 libbsd0 0.12.2-3 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6+b2 install ok installed libc-bin libc-bin 2.43-6 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.43-6 install ok installed libc6:amd64 libc6 2.43-6 install ok installed libcap-ng0:amd64 libcap-ng0 0.9.6-1 install ok installed libcbor0.10:amd64 libcbor0.10 0.10.2-2.2 install ok installed libclang-common-21-dev:amd64 libclang-common-21-dev 1:21.1.8-13 install ok installed libcom-err2:amd64 libcom-err2 1.47.4-1+b1 install ok installed libcommons-beanutils-java libcommons-beanutils-java 1.10.1-1.1 install ok installed libcommons-codec-java libcommons-codec-java 1.22.1-1 install ok installed libcommons-collections3-java libcommons-collections3-java 3.2.2-3 install ok installed libcommons-collections4-java libcommons-collections4-java 4.4-2 install ok installed libcommons-compress-java libcommons-compress-java 1.27.1-2 install ok installed libcommons-io-java libcommons-io-java 2.22.0-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.20.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-2 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.2+20251210-1 install ok installed libcurl4t64:amd64 libcurl4t64 8.22.0-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.134-3 install ok installed libdrm-common libdrm-common 2.4.134-3 install ok installed libdrm2:amd64 libdrm2 2.4.134-3 install ok installed libedit2:amd64 libedit2 3.1-20260512-1 install ok installed libelf1t64:amd64 libelf1t64 0.196-1 install ok installed liberror-prone-java liberror-prone-java 2.18.0-1 install ok installed libesmtp6:amd64 libesmtp6 1.1.0-3.2+b2 install ok installed libevent-core-2.1-7t64:amd64 libevent-core-2.1-7t64 2.1.13-stable-1 install ok installed libevent-pthreads-2.1-7t64:amd64 libevent-pthreads-2.1-7t64 2.1.13-stable-1 install ok installed libezmorph-java libezmorph-java 1.0.6-4 install ok installed libfabric1:amd64 libfabric1 2.1.0-1.1+b2 install ok installed libffi8:amd64 libffi8 3.8.0-2 install ok installed libfido2-1:amd64 libfido2-1 1.17.0-2 install ok installed libfmt10:amd64 libfmt10 10.1.1+ds1-4+b2 install ok installed libfuse3-4:amd64 libfuse3-4 3.18.3-1 install ok installed libgcc-s1:amd64 libgcc-s1 16.2.0-3 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.26-1+b2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.26-1+b2 install ok installed libgenomicsdb-java libgenomicsdb-java 1.5.5-3 install ok installed libgenomicsdb-jni libgenomicsdb-jni 1.5.5-3 install ok installed libgenomicsdb1 libgenomicsdb1 1.5.5-3 install ok installed libgetopt-java libgetopt-java 1.0.14+dfsg-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libgomp1:amd64 libgomp1 16.2.0-3 install ok installed libgoogle-gson-java libgoogle-gson-java 2.10.1-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.22.1-3 install ok installed libguava-java libguava-java 32.0.1-1 install ok installed libhamcrest-java libhamcrest-java 2.2-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed libhsa-runtime64-1:amd64 libhsa-runtime64-1 6.4.3+dfsg-5 install ok installed libhsakmt1:amd64 libhsakmt1 6.4.3+dfsg-4 install ok installed libhtsjdk-java libhtsjdk-java 5.0.0+dfsg-1 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 libhwloc-plugins:amd64 libhwloc-plugins 2.14.0-2 install ok installed libhwloc15:amd64 libhwloc15 2.14.0-2 install ok installed libibmad5:amd64 libibmad5 65.0-1 install ok installed libibumad3:amd64 libibumad3 65.0-1 install ok installed libibverbs1:amd64 libibverbs1 65.0-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.8-5 install ok installed libjaxen-java libjaxen-java 1.2.0-1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:3.1.3-4 install ok installed libjson-java libjson-java 3.2.0+dfsg-2 install ok installed libjson-simple-java libjson-simple-java 2.3.0-2 install ok installed libjsr305-java libjsr305-java 0.1~+svn49-12 install ok installed libk5crypto3:amd64 libk5crypto3 1.22.1-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-6+b2 install ok installed libkrb5-3:amd64 libkrb5-3 1.22.1-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.22.1-3 install ok installed liblcms2-2:amd64 liblcms2-2 2.19.1-1 install ok installed libldap2:amd64 libldap2 2.6.14+dfsg-2 install ok installed liblightcouch-java liblightcouch-java 0.2.0-1 install ok installed libllvm21:amd64 libllvm21 1:21.1.8-13 install ok installed liblog4j2-java liblog4j2-java 2.19.0-2 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.4-1 install ok installed libmbedcrypto16:amd64 libmbedcrypto16 3.6.7-3 install ok installed libmbedtls21:amd64 libmbedtls21 3.6.7-3 install ok installed libmbedx509-7:amd64 libmbedx509-7 3.6.7-3 install ok installed libmd0:amd64 libmd0 1.2.0-2 install ok installed libmongodb-java libmongodb-java 3.6.3-2.1 install ok installed libmount1:amd64 libmount1 2.42.3-1 install ok installed libmunge2:amd64 libmunge2 0.5.18-1 install ok installed libmuparserx4.0.12:amd64 libmuparserx4.0.12 4.0.12-2.1+b1 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.2.1+dfsg-6+b3 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.2.1+dfsg-2+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.70.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.17.0-1 install ok installed libngs-java:amd64 libngs-java 3.2.1+dfsg-6+b3 install ok installed libngs-jni:amd64 libngs-jni 3.2.1+dfsg-6+b3 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.24.0-1 install ok installed libngtcp2-crypto-ossl0:amd64 libngtcp2-crypto-ossl0 1.24.0-1 install ok installed libnl-3-200:amd64 libnl-3-200 3.12.0-2+b1 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.12.0-2+b1 install ok installed libnspr4:amd64 libnspr4 2:4.40-1 install ok installed libnss3:amd64 libnss3 2:3.129-1 install ok installed libnuma1:amd64 libnuma1 2.0.19-1+b2 install ok installed libopenmpi40:amd64 libopenmpi40 5.0.11-2 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-8 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-8 install ok installed libpam-runtime libpam-runtime 1.7.0-8 install ok installed libpam0g:amd64 libpam0g 1.7.0-8 install ok installed libpciaccess0:amd64 libpciaccess0 0.19-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.48-3 install ok installed libpcsclite1:amd64 libpcsclite1 2.5.2-1 install ok installed libperl5.42:amd64 libperl5.42 5.42.3-1 install ok installed libpmix2t64:amd64 libpmix2t64 7.0.0~git.20260918-1 install ok installed libprotobuf-java libprotobuf-java 3.21.12-16 install ok installed libprotobuf32t64:amd64 libprotobuf32t64 3.21.12-16 install ok installed libprrte-bin libprrte-bin 5.0.0~git.20260918.1-2 install ok installed libprrte3:amd64 libprrte3 3.0.13-3 install ok installed libprrte4:amd64 libprrte4 5.0.0~git.20260918.1-2 install ok installed libpsl5t64:amd64 libpsl5t64 0.23.3-1 install ok installed libpsm2-2 libpsm2-2 11.2.185-2.1 install ok installed librdmacm1t64:amd64 librdmacm1t64 65.0-1 install ok installed librhino-java librhino-java 1.7.15.1-0.1 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-11 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-11 install ok installed libseccomp2:amd64 libseccomp2 2.6.1-1+b1 install ok installed libselinux1:amd64 libselinux1 3.11-2 install ok installed libsemanage-common libsemanage-common 3.11-1 install ok installed libsemanage2:amd64 libsemanage2 3.11-1+b1 install ok installed libsepol2:amd64 libsepol2 3.11-1 install ok installed libslf4j-java libslf4j-java 1.7.32-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.42.3-1 install ok installed libsnappy-java libsnappy-java 1.1.10.8-1 install ok installed libsnappy-jni libsnappy-jni 1.1.10.8-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.3.1-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.53.4-2 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-6 install ok installed libssl3t64:amd64 libssl3t64 3.6.4-1 install ok installed libstdc++6:amd64 libstdc++6 16.2.0-3 install ok installed libsystemd-shared:amd64 libsystemd-shared 262~rc3-1 install ok installed libsystemd0:amd64 libsystemd0 262~rc3-1 install ok installed libtinfo6:amd64 libtinfo6 6.6+20260608-2 install ok installed libucc1:amd64 libucc1 1.9.0-1 install ok installed libucx0:amd64 libucx0 1.22.0-1 install ok installed libudev1:amd64 libudev1 262~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.4.2-1 install ok installed libuuid1:amd64 libuuid1 2.42.3-1 install ok installed libx11-6:amd64 libx11-6 2:1.8.13-1 install ok installed libx11-data libx11-data 2:1.8.13-1 install ok installed libxau6:amd64 libxau6 1:1.0.11-1+b2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-2+b1 install ok installed libxerces2-java libxerces2-java 2.12.2-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b4 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 libxml2-16:amd64 libxml2-16 2.15.4+dfsg-1 install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1+b3 install ok installed libxom-java libxom-java 1.4.6-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libz3-4:amd64 libz3-4 4.13.3-1.1 install ok installed libze1:amd64 libze1 1.32.0-1 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-4 install ok installed login login 1:4.16.0-2+really2.42.3-1 install ok installed login.defs login.defs 1:4.19.3-2 install ok installed mawk mawk 1.3.4.20260302-1 install ok installed mount mount 2.42.3-1 install ok installed mpi-default-bin mpi-default-bin 1.20 install ok installed ncbi-vdb-data ncbi-vdb-data 3.2.1+dfsg-2 install ok installed ncurses-base ncurses-base 6.6+20260608-2 install ok installed ncurses-bin ncurses-bin 6.6+20260608-2 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.3.4-1+b1 install ok installed openjdk-25-jre-headless:amd64 openjdk-25-jre-headless 25.0.5~6ea-1 install ok installed openmpi-bin openmpi-bin 5.0.11-2 install ok installed openmpi-common openmpi-common 5.0.11-2 install ok installed openssh-client openssh-client 1:10.5p1-1 install ok installed openssh-common openssh-common 1:10.5p1-1 install ok installed openssl openssl 3.6.4-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.4-1 install ok installed passwd passwd 1:4.19.3-2 install ok installed pci.ids pci.ids 0.0~2026.07.21-1 install ok installed perl perl 5.42.3-1 install ok installed perl-base perl-base 5.42.3-1 install ok installed perl-modules-5.42 perl-modules-5.42 5.42.3-1 install ok installed prrte-common prrte-common 5.0.0~git.20260918.1-2 install ok installed sed sed 4.9-3 install ok installed sqv sqv 1.5.0-1 install ok installed systemd systemd 262~rc3-1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-6 install ok installed tzdata tzdata 2026c-1 install ok installed util-linux util-linux 2.42.3-1 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 0m42.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m42.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcurl4t64:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'liberror-prone-java', 'libesmtp6:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libffi8:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfuse3-4:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgenomicsdb-jni', 'libgenomicsdb1', 'libgetopt-java', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgssapi-krb5-2:amd64', 'libguava-java', 'libhamcrest-java', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libidn2-0:amd64', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'libjson-simple-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblightcouch-java', 'libllvm21:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf32t64:amd64', 'libprrte-bin', 'libprrte3:amd64', 'libprrte4:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'libze1:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-25-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssh-common', 'openssl', 'pci.ids', 'perl', 'perl-modules-5.42', 'prrte-common', 'systemd', 'libgenomicsdb-java'] 0m44.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages will be REMOVED: ca-certificates ca-certificates-java default-jre-headless ibverbs-providers java-common junit4 libamd-comgr3 libamdhip64-6 libapache-pom-java libatinject-jsr330-api-java libbrotli1 libcbor0.10 libclang-common-21-dev libcom-err2 libcommons-beanutils-java libcommons-codec-java libcommons-collections3-java libcommons-collections4-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libcurl4t64 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 liberror-prone-java libesmtp6 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libezmorph-java libfabric1 libffi8 libfido2-1 libfmt10 libfuse3-4 libgdbm-compat4t64 libgdbm6t64 libgenomicsdb-java libgenomicsdb-jni libgenomicsdb1 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhamcrest-java libhsa-runtime64-1 libhsakmt1 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libidn2-0 libjaxen-java libjpeg62-turbo libjson-java libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap2 liblightcouch-java libllvm21 liblog4j2-java libmbedcrypto16 libmbedtls21 libmbedx509-7 libmongodb-java libmunge2 libmuparserx4.0.12 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libnghttp3-9 libngs-java libngs-jni libngtcp2-16 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libnuma1 libopenmpi40 libpciaccess0 libpcsclite1 libperl5.42 libpmix2t64 libprotobuf-java libprotobuf32t64 libprrte-bin libprrte3 libprrte4 libpsl5t64 libpsm2-2 librdmacm1t64 librhino-java libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libsystemd-shared libucc1 libucx0 libunistring5 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces2-java libxext6 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2-16 libxnvctrl0 libxom-java libz3-4 libze1 mpi-default-bin ncbi-vdb-data ocl-icd-libopencl1 openjdk-25-jre-headless openmpi-bin openmpi-common openssh-client openssh-common openssl pci.ids perl perl-modules-5.42 prrte-common systemd 0 upgraded, 0 newly installed, 149 to remove and 0 not upgraded. After this operation, 708 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 ... 11725 files and directories currently installed.) Removing libgenomicsdb-java (1.5.5-3) ... Removing libhtsjdk-java (5.0.0+dfsg-1) ... Removing libjson-java (3.2.0+dfsg-2) ... Removing junit4 (4.13.2-6) ... Removing default-jre-headless (2:1.25-77) ... Removing openjdk-25-jre-headless:amd64 (25.0.5~6ea-1) ... Removing ca-certificates-java (20260311) ... Removing ca-certificates (20260816) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libgenomicsdb-jni (1.5.5-3) ... Removing libgenomicsdb1 (1.5.5-3) ... Removing mpi-default-bin (1.20) ... Removing openmpi-bin (5.0.11-2) ... Removing libopenmpi40:amd64 (5.0.11-2) ... Removing libfabric1:amd64 (2.1.0-1.1+b2) ... Removing ibverbs-providers:amd64 (65.0-1) ... Removing java-common (0.77) ... Removing libucc1:amd64 (1.9.0-1) ... Removing libucx0:amd64 (1.22.0-1) ... Removing libamdhip64-6:amd64 (6.4.3-5) ... Removing libamd-comgr3:amd64 (7.0.2+dfsg-3) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing liblog4j2-java (2.19.0-2) ... Removing liblightcouch-java (0.2.0-1) ... Removing libhttpclient-java (4.5.14-1) ... Removing libcommons-lang3-java (3.20.0-1) ... Removing libprotobuf-java (3.21.12-16) ... Removing libcurl4t64:amd64 (8.22.0-1) ... Removing libbrotli1:amd64 (1.2.0-4+b1) ... Removing openssh-client (1:10.5p1-1) ... Removing openssh-common (1:10.5p1-1) ... Removing libfido2-1:amd64 (1.17.0-2) ... Removing libcbor0.10:amd64 (0.10.2-2.2) ... Removing libclang-common-21-dev:amd64 (1:21.1.8-13) ... Removing libgssapi-krb5-2:amd64 (1.22.1-3) ... Removing libkrb5-3:amd64 (1.22.1-3) ... Removing libcom-err2:amd64 (1.47.4-1+b1) ... Removing libcommons-beanutils-java (1.10.1-1.1) ... Removing libcommons-compress-java (1.27.1-2) ... Removing libcommons-codec-java (1.22.1-1) ... Removing libcommons-collections3-java (3.2.2-3) ... Removing libcommons-collections4-java (4.4-2) ... Removing libcommons-io-java (2.22.0-1) ... Removing libhsakmt1:amd64 (6.4.3+dfsg-4) ... Removing libhsa-runtime64-1:amd64 (6.4.3+dfsg-5) ... Removing libdrm-amdgpu1:amd64 (2.4.134-3) ... Removing libdrm2:amd64 (2.4.134-3) ... Removing libdrm-common (2.4.134-3) ... Removing libllvm21:amd64 (1:21.1.8-13) ... Removing libedit2:amd64 (3.1-20260512-1) ... Removing libelf1t64:amd64 (0.196-1) ... Removing libprrte3:amd64 (3.0.13-3) ... Removing libprrte-bin (5.0.0~git.20260918.1-2) ... Removing libprrte4:amd64 (5.0.0~git.20260918.1-2) ... Removing libpmix2t64:amd64 (7.0.0~git.20260918-1) ... Removing libesmtp6:amd64 (1.1.0-3.2+b2) ... Removing libevent-pthreads-2.1-7t64:amd64 (2.1.13-stable-1) ... Removing libevent-core-2.1-7t64:amd64 (2.1.13-stable-1) ... Removing libezmorph-java (1.0.6-4) ... Removing libffi8:amd64 (3.8.0-2) ... Removing libfmt10:amd64 (10.1.1+ds1-4+b2) ... Removing libfuse3-4:amd64 (3.18.3-1) ... Removing perl (5.42.3-1) ... Removing libperl5.42:amd64 (5.42.3-1) ... Removing libgdbm-compat4t64:amd64 (1.26-1+b2) ... Removing libgdbm6t64:amd64 (1.26-1+b2) ... Removing libgetopt-java (1.0.14+dfsg-6) ... Removing libgomp1:amd64 (16.2.0-3) ... Removing libgoogle-gson-java (2.10.1-1) ... Removing libhamcrest-java (2.2-2) ... Removing libhttpcore-java (4.4.16-1) ... Removing libhwloc-plugins:amd64 (2.14.0-2) ... Removing libhwloc15:amd64 (2.14.0-2) ... Removing libibmad5:amd64 (65.0-1) ... Removing libibumad3:amd64 (65.0-1) ... Removing librdmacm1t64:amd64 (65.0-1) ... Removing libibverbs1:amd64 (65.0-1) ... Removing libpsl5t64:amd64 (0.23.3-1) ... Removing libidn2-0:amd64 (2.3.8-5) ... Removing libxom-java (1.4.6-1) ... Removing libjaxen-java (1.2.0-1) ... Removing libjpeg62-turbo:amd64 (1:3.1.3-4) ... Removing libjson-simple-java (2.3.0-2) ... Removing libk5crypto3:amd64 (1.22.1-3) ... Removing libkeyutils1:amd64 (1.6.3-6+b2) ... Removing libkrb5support0:amd64 (1.22.1-3) ... Removing liblcms2-2:amd64 (2.19.1-1) ... Removing libldap2:amd64 (2.6.14+dfsg-2) ... Removing libngs-java:amd64 (3.2.1+dfsg-6+b3) ... Removing libngs-jni:amd64 (3.2.1+dfsg-6+b3) ... Removing libncbi-ngs3:amd64 (3.2.1+dfsg-6+b3) ... Removing libncbi-vdb3:amd64 (3.2.1+dfsg-2+b1) ... Removing libmbedtls21:amd64 (3.6.7-3) ... Removing libmbedx509-7:amd64 (3.6.7-3) ... Removing libmbedcrypto16:amd64 (3.6.7-3) ... Removing libmongodb-java (3.6.3-2.1) ... Removing libmunge2:amd64 (0.5.18-1) ... Removing libmuparserx4.0.12:amd64 (4.0.12-2.1+b1) ... Removing libnghttp2-14:amd64 (1.70.0-1) ... Removing libnghttp3-9:amd64 (1.17.0-1) ... Removing libngtcp2-crypto-ossl0:amd64 (1.24.0-1) ... Removing libngtcp2-16:amd64 (1.24.0-1) ... Removing libnl-route-3-200:amd64 (3.12.0-2+b1) ... Removing libnl-3-200:amd64 (3.12.0-2+b1) ... Removing libnss3:amd64 (2:3.129-1) ... Removing libnspr4:amd64 (2:4.40-1) ... Removing libpsm2-2 (11.2.185-2.1) ... Removing libnuma1:amd64 (2.0.19-1+b2) ... Removing libpciaccess0:amd64 (0.19-2) ... Removing libpcsclite1:amd64 (2.5.2-1) ... Removing libprotobuf32t64:amd64 (3.21.12-16) ... Removing librhino-java (1.7.15.1-0.1) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-11) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-11) ... Removing libslf4j-java (1.7.32-2) ... Removing libsnappy-java (1.1.10.8-1) ... Removing libsnappy-jni (1.1.10.8-1) ... Removing libsnappy1v5:amd64 (1.3.1-1) ... Removing libsqlite3-0:amd64 (3.53.4-2) ... Removing libssh2-1t64:amd64 (1.11.1-6) ... Removing systemd (262~rc3-1) ... Removing libsystemd-shared:amd64 (262~rc3-1) ... Removing libunistring5:amd64 (1.4.2-1) ... Removing libxnvctrl0:amd64 (535.171.04-1+b3) ... Removing libxext6:amd64 (2:1.3.4-1+b4) ... Removing libx11-6:amd64 (2:1.8.13-1) ... Removing libx11-data (2:1.8.13-1) ... Removing libxcb1:amd64 (1.17.0-2+b2) ... Removing libxau6:amd64 (1:1.0.11-1+b2) ... Removing libxdmcp6:amd64 (1:1.1.5-2+b1) ... Removing libxerces2-java (2.12.2-1) ... Removing libxml-commons-external-java (1.4.01-6) ... Removing libxml-commons-resolver1.1-java (1.2-11) ... Removing libxml2-16:amd64 (2.15.4+dfsg-1) ... Removing libz3-4:amd64 (4.13.3-1.1) ... Removing libze1:amd64 (1.32.0-1) ... Removing ncbi-vdb-data (3.2.1+dfsg-2) ... rm: cannot remove '/usr/lib/python3/dist-packages/__pycache__/vdb.*': No such file or directory Removing ocl-icd-libopencl1:amd64 (2.3.4-1+b1) ... Removing openmpi-common (5.0.11-2) ... Removing openssl (3.6.4-1) ... Removing pci.ids (0.0~2026.07.21-1) ... Removing perl-modules-5.42 (5.42.3-1) ... Removing prrte-common (5.0.0~git.20260918.1-2) ... Removing libcommons-logging-java (1.3.0-2) ... Removing libcommons-parent-java (56-1) ... Removing libapache-pom-java (33-2) ... Removing liberror-prone-java (2.18.0-1) ... Removing libguava-java (32.0.1-1) ... Removing libatinject-jsr330-api-java (1.0+ds1-6) ... Removing libjsr305-java (0.1~+svn49-12) ... Processing triggers for libc-bin (2.43-6) ... 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcurl4t64:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'liberror-prone-java', 'libesmtp6:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libffi8:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfuse3-4:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgenomicsdb-jni', 'libgenomicsdb1', 'libgetopt-java', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgssapi-krb5-2:amd64', 'libguava-java', 'libhamcrest-java', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libidn2-0:amd64', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'libjson-simple-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblightcouch-java', 'libllvm21:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf32t64:amd64', 'libprrte-bin', 'libprrte3:amd64', 'libprrte4:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'libze1:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-25-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssh-common', 'openssl', 'pci.ids', 'perl', 'perl-modules-5.42', 'prrte-common', 'systemd', 'libgenomicsdb-java'] 0m44.5s INFO: Running scripts post_remove 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_remove_exceptions'] 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_remove_exceptions'] 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcurl4t64:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'liberror-prone-java', 'libesmtp6:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libffi8:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfuse3-4:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgenomicsdb-jni', 'libgenomicsdb1', 'libgetopt-java', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgssapi-krb5-2:amd64', 'libguava-java', 'libhamcrest-java', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libidn2-0:amd64', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'libjson-simple-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblightcouch-java', 'libllvm21:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf32t64:amd64', 'libprrte-bin', 'libprrte3:amd64', 'libprrte4:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'libze1:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-25-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssh-common', 'openssl', 'pci.ids', 'perl', 'perl-modules-5.42', 'prrte-common', 'systemd'] 0m44.7s DUMP: (Reading database ... 5049 files and directories currently installed.) Purging configuration files for ca-certificates (20260816) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20260311) ... dpkg: warning: ignoring request to remove default-jre-headless which is not installed Purging configuration files for ibverbs-providers:amd64 (65.0-1) ... Purging configuration files for java-common (0.77) ... dpkg: warning: ignoring request to remove junit4 which is not installed dpkg: warning: ignoring request to remove libamd-comgr3 which is not installed dpkg: warning: ignoring request to remove libamdhip64-6 which is not installed dpkg: warning: ignoring request to remove libapache-pom-java which is not installed dpkg: warning: ignoring request to remove libatinject-jsr330-api-java which is not installed dpkg: warning: ignoring request to remove libbrotli1 which is not installed dpkg: warning: ignoring request to remove libcbor0.10 which is not installed dpkg: warning: ignoring request to remove libclang-common-21-dev which is not installed dpkg: warning: ignoring request to remove libcom-err2 which is not installed dpkg: warning: ignoring request to remove libcommons-beanutils-java which is not installed dpkg: warning: ignoring request to remove libcommons-codec-java which is not installed dpkg: warning: ignoring request to remove libcommons-collections3-java which is not installed dpkg: warning: ignoring request to remove libcommons-collections4-java which is not installed dpkg: warning: ignoring request to remove libcommons-compress-java which is not installed dpkg: warning: ignoring request to remove libcommons-io-java which is not installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which is not installed dpkg: warning: ignoring request to remove libcommons-lang3-java which is not installed dpkg: warning: ignoring request to remove libcommons-logging-java which is not installed dpkg: warning: ignoring request to remove libcommons-parent-java which is not installed dpkg: warning: ignoring request to remove libcurl4t64 which is not installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which is not installed dpkg: warning: ignoring request to remove libdrm-common which is not installed dpkg: warning: ignoring request to remove libdrm2 which is not installed dpkg: warning: ignoring request to remove libedit2 which is not installed dpkg: warning: ignoring request to remove libelf1t64 which is not installed dpkg: warning: ignoring request to remove liberror-prone-java which is not installed dpkg: warning: ignoring request to remove libesmtp6 which is not installed dpkg: warning: ignoring request to remove libevent-core-2.1-7t64 which is not installed dpkg: warning: ignoring request to remove libevent-pthreads-2.1-7t64 which is not installed dpkg: warning: ignoring request to remove libezmorph-java which is not installed dpkg: warning: ignoring request to remove libfabric1 which is not installed dpkg: warning: ignoring request to remove libffi8 which is not installed dpkg: warning: ignoring request to remove libfido2-1 which is not installed dpkg: warning: ignoring request to remove libfmt10 which is not installed dpkg: warning: ignoring request to remove libfuse3-4 which is not installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which is not installed dpkg: warning: ignoring request to remove libgdbm6t64 which is not installed dpkg: warning: ignoring request to remove libgenomicsdb-jni which is not installed dpkg: warning: ignoring request to remove libgenomicsdb1 which is not installed dpkg: warning: ignoring request to remove libgetopt-java which is not installed dpkg: warning: ignoring request to remove libgomp1 which is not installed dpkg: warning: ignoring request to remove libgoogle-gson-java which is not installed Purging configuration files for libgssapi-krb5-2:amd64 (1.22.1-3) ... dpkg: warning: ignoring request to remove libguava-java which is not installed dpkg: warning: ignoring request to remove libhamcrest-java which is not installed dpkg: warning: ignoring request to remove libhsa-runtime64-1 which is not installed dpkg: warning: ignoring request to remove libhsakmt1 which is not installed dpkg: warning: ignoring request to remove libhtsjdk-java which is not installed dpkg: warning: ignoring request to remove libhttpclient-java which is not installed dpkg: warning: ignoring request to remove libhttpcore-java which is not installed dpkg: warning: ignoring request to remove libhwloc-plugins which is not installed dpkg: warning: ignoring request to remove libhwloc15 which is not installed dpkg: warning: ignoring request to remove libibmad5 which is not installed dpkg: warning: ignoring request to remove libibumad3 which is not installed dpkg: warning: ignoring request to remove libibverbs1 which is not installed dpkg: warning: ignoring request to remove libidn2-0 which is not installed dpkg: warning: ignoring request to remove libjaxen-java which is not installed dpkg: warning: ignoring request to remove libjpeg62-turbo which is not installed dpkg: warning: ignoring request to remove libjson-java which is not installed dpkg: warning: ignoring request to remove libjson-simple-java which is not installed dpkg: warning: ignoring request to remove libjsr305-java which is not installed dpkg: warning: ignoring request to remove libk5crypto3 which is not installed dpkg: warning: ignoring request to remove libkeyutils1 which is not installed dpkg: warning: ignoring request to remove libkrb5-3 which is not installed dpkg: warning: ignoring request to remove libkrb5support0 which is not installed dpkg: warning: ignoring request to remove liblcms2-2 which is not installed dpkg: warning: ignoring request to remove libldap2 which is not installed dpkg: warning: ignoring request to remove liblightcouch-java which is not installed dpkg: warning: ignoring request to remove libllvm21 which is not installed dpkg: warning: ignoring request to remove liblog4j2-java which is not installed dpkg: warning: ignoring request to remove libmbedcrypto16 which is not installed dpkg: warning: ignoring request to remove libmbedtls21 which is not installed dpkg: warning: ignoring request to remove libmbedx509-7 which is not installed dpkg: warning: ignoring request to remove libmongodb-java which is not installed dpkg: warning: ignoring request to remove libmunge2 which is not installed dpkg: warning: ignoring request to remove libmuparserx4.0.12 which is not installed dpkg: warning: ignoring request to remove libncbi-ngs3 which is not installed dpkg: warning: ignoring request to remove libncbi-vdb3 which is not installed dpkg: warning: ignoring request to remove libnghttp2-14 which is not installed dpkg: warning: ignoring request to remove libnghttp3-9 which is not installed dpkg: warning: ignoring request to remove libngs-java which is not installed dpkg: warning: ignoring request to remove libngs-jni which is not installed dpkg: warning: ignoring request to remove libngtcp2-16 which is not installed dpkg: warning: ignoring request to remove libngtcp2-crypto-ossl0 which is not installed Purging configuration files for libnl-3-200:amd64 (3.12.0-2+b1) ... dpkg: warning: ignoring request to remove libnl-route-3-200 which is not installed dpkg: warning: ignoring request to remove libnspr4 which is not installed dpkg: warning: ignoring request to remove libnss3 which is not installed dpkg: warning: ignoring request to remove libnuma1 which is not installed dpkg: warning: ignoring request to remove libopenmpi40 which is not installed dpkg: warning: ignoring request to remove libpciaccess0 which is not installed dpkg: warning: ignoring request to remove libpcsclite1 which is not installed dpkg: warning: ignoring request to remove libperl5.42 which is not installed dpkg: warning: ignoring request to remove libpmix2t64 which is not installed dpkg: warning: ignoring request to remove libprotobuf-java which is not installed dpkg: warning: ignoring request to remove libprotobuf32t64 which is not installed Purging configuration files for libprrte-bin (5.0.0~git.20260918.1-2) ... dpkg: warning: ignoring request to remove libprrte3 which is not installed dpkg: warning: ignoring request to remove libprrte4 which is not installed dpkg: warning: ignoring request to remove libpsl5t64 which is not installed dpkg: warning: ignoring request to remove libpsm2-2 which is not installed dpkg: warning: ignoring request to remove librdmacm1t64 which is not installed dpkg: warning: ignoring request to remove librhino-java which is not installed dpkg: warning: ignoring request to remove libsasl2-2 which is not installed dpkg: warning: ignoring request to remove libsasl2-modules-db which is not installed dpkg: warning: ignoring request to remove libslf4j-java which is not installed dpkg: warning: ignoring request to remove libsnappy-java which is not installed dpkg: warning: ignoring request to remove libsnappy-jni which is not installed dpkg: warning: ignoring request to remove libsnappy1v5 which is not installed dpkg: warning: ignoring request to remove libsqlite3-0 which is not installed dpkg: warning: ignoring request to remove libssh2-1t64 which is not installed dpkg: warning: ignoring request to remove libsystemd-shared which is not installed dpkg: warning: ignoring request to remove libucc1 which is not installed dpkg: warning: ignoring request to remove libucx0 which is not installed dpkg: warning: ignoring request to remove libunistring5 which is not installed dpkg: warning: ignoring request to remove libx11-6 which is not installed dpkg: warning: ignoring request to remove libx11-data which is not installed dpkg: warning: ignoring request to remove libxau6 which is not installed dpkg: warning: ignoring request to remove libxcb1 which is not installed dpkg: warning: ignoring request to remove libxdmcp6 which is not installed dpkg: warning: ignoring request to remove libxerces2-java which is not installed dpkg: warning: ignoring request to remove libxext6 which is not installed dpkg: warning: ignoring request to remove libxml-commons-external-java which is not installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-11) ... dpkg: warning: ignoring request to remove libxml2-16 which is not installed dpkg: warning: ignoring request to remove libxnvctrl0 which is not installed dpkg: warning: ignoring request to remove libxom-java which is not installed dpkg: warning: ignoring request to remove libz3-4 which is not installed dpkg: warning: ignoring request to remove libze1 which is not installed dpkg: warning: ignoring request to remove mpi-default-bin which is not installed Purging configuration files for ncbi-vdb-data (3.2.1+dfsg-2) ... dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which is not installed Purging configuration files for openjdk-25-jre-headless:amd64 (25.0.5~6ea-1) ... Purging configuration files for openmpi-bin (5.0.11-2) ... dpkg: warning: ignoring request to remove openmpi-common which is not installed Purging configuration files for openssh-client (1:10.5p1-1) ... dpkg: warning: ignoring request to remove openssh-common which is not installed Purging configuration files for openssl (3.6.4-1) ... dpkg: warning: ignoring request to remove pci.ids which is not installed Purging configuration files for perl (5.42.3-1) ... dpkg: warning: ignoring request to remove perl-modules-5.42 which is not installed dpkg: warning: ignoring request to remove prrte-common which is not installed Purging configuration files for systemd (262~rc3-1) ... 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcommons-beanutils-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-collections4-java', 'libcommons-compress-java', 'libcommons-io-java', 'libcommons-jexl2-java', 'libcommons-lang3-java', 'libcommons-logging-java', 'libcommons-parent-java', 'libcurl4t64:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'liberror-prone-java', 'libesmtp6:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libffi8:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfuse3-4:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgenomicsdb-jni', 'libgenomicsdb1', 'libgetopt-java', 'libgomp1:amd64', 'libgoogle-gson-java', 'libgssapi-krb5-2:amd64', 'libguava-java', 'libhamcrest-java', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhtsjdk-java', 'libhttpclient-java', 'libhttpcore-java', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libidn2-0:amd64', 'libjaxen-java', 'libjpeg62-turbo:amd64', 'libjson-java', 'libjson-simple-java', 'libjsr305-java', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblightcouch-java', 'libllvm21:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedtls21:amd64', 'libmbedx509-7:amd64', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libperl5.42:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf32t64:amd64', 'libprrte-bin', 'libprrte3:amd64', 'libprrte4:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsystemd-shared:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml2-16:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'libze1:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-25-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssh-common', 'openssl', 'pci.ids', 'perl', 'perl-modules-5.42', 'prrte-common', 'systemd'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', 'libgenomicsdb-java'] 0m44.7s DUMP: dpkg: warning: ignoring request to remove libgenomicsdb-java which is not installed 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', 'libgenomicsdb-java'] 0m44.7s INFO: Running scripts post_purge 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_purge_exceptions'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_purge_exceptions'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', '--pending'] 0m44.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--purge', '--pending'] 0m44.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--remove', '--pending'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg', '--remove', '--pending'] 0m44.8s INFO: Running scripts post_test 0m44.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_test_exceptions'] 0m44.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'tmp/scripts/post_test_exceptions'] 0m44.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m45.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-divert', '--list'] 0m45.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m45.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'dpkg-divert', '--list'] 0m45.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'clean'] 0m45.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b', 'apt-get', 'clean'] 0m45.2s DEBUG: Recording chroot state 0m45.9s INFO: Warning: Package purging left files on system: /etc/default/locale -> ../locale.conf not owned /etc/vconsole.conf -> default/keyboard not owned /root/.ssh/ not owned /var/cache/private/ not owned /var/lib/private/ not owned /var/log/private/ not owned 0m46.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/shm'] 0m46.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/shm'] 0m46.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/console'] 0m46.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/console'] 0m46.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/ptmx'] 0m46.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/ptmx'] 0m46.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts'] 0m46.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/dev/pts'] 0m46.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/proc'] 0m46.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b/proc'] 0m46.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m46.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpvsrj7u1b'] 0m46.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpvsrj7u1b 0m46.5s INFO: PASS: Upgrading between Debian distributions. 0m46.5s INFO: PASS: All tests. 0m46.5s INFO: piuparts run ends. ret=0 End: 2026-09-21 22:54:11 GMT