Start: 2024-12-30 16:56:57 GMT [stable] Package: libgenomicsdb-java Source: genomicsdb Version: 1.4.4-3 Installed-Size: 465 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.11.0), libgetopt-java, libguava-java, libhtsjdk-java (>= 3.0.2), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libprotobuf-java-format-java (>= 1.3), libgenomicsdb-jni (>= 1.4.4-3), libgenomicsdb-jni (<< 1.4.4-3.1~) 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_1.4.4-3_all.deb Size: 391580 MD5sum: 38b84f68713f9d8fe5a659932dc55536 SHA256: be907eca323a8da7878b0e9b12b4947d8c5eaaee65f7d4f200719ad7503e1c0e [testing] [sid] Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.4-4 Installed-Size: 493 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.17.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.4-4), libgenomicsdb-jni (<< 1.5.4-4.1~) 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_1.5.4-4_all.deb Size: 409656 MD5sum: f63beb98c92f3fefc5bb245a9aabcbad SHA256: 0032b962a6b2dfc923d4b1a1a9387ecd32837e59eba8e00ad65446541c286f10 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt libgenomicsdb-java=1.5.4-4 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt libgenomicsdb-java=1.5.4-4 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp5ngmsbn0 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp5ngmsbn0 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm 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/tmp5ngmsbn0/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m0.7s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m0.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m0.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m0.9s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m0.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m0.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.1s DUMP: 9667be4591f2cce307f0cd9e8fe66190 - 0m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.1s INFO: Running scripts post_setup 0m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_dummy_users'] 0m1.5s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_dummy_users'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_forbid_home'] 0m1.5s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_forbid_home'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.5s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_minimize'] 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_minimize'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_zz_backports'] 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_setup_zz_backports'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m1.5s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u8 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u2 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u9 install ok installed libc6:amd64 libc6 2.36-9+deb12u9 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u2 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u2 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.31-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.31-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u2 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u2 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u2 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u2 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m1.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m1.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m1.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m1.8s INFO: Running scripts is_testable 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/is_testable_uninstallable'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/is_testable_uninstallable'] 0m1.8s INFO: Running scripts pre_test 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_test_exceptions'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_test_exceptions'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_test_root_password'] 0m1.8s DUMP: New password: Retype new password: passwd: password updated successfully 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_test_root_password'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m1.9s DUMP: Package: libgenomicsdb-java Source: genomicsdb Version: 1.4.4-3 Installed-Size: 465 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.11.0), libgetopt-java, libguava-java, libhtsjdk-java (>= 3.0.2), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libprotobuf-java-format-java (>= 1.3), libgenomicsdb-jni (>= 1.4.4-3), libgenomicsdb-jni (<< 1.4.4-3.1~) 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_1.4.4-3_all.deb Size: 391580 MD5sum: 38b84f68713f9d8fe5a659932dc55536 SHA256: be907eca323a8da7878b0e9b12b4947d8c5eaaee65f7d4f200719ad7503e1c0e 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m1.9s INFO: apt-cache knows about the following packages: libgenomicsdb-java 0m1.9s INFO: Running scripts pre_install 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m2.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.8,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m2.0s DUMP: libgenomicsdb-java: Installed: (none) Candidate: 1.4.4-3 Version table: 1.4.4-3 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m6.4s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ibverbs-providers libapache-pom-java libatinject-jsr330-api-java libatomic1 libbrotli1 libbsd0 libcbor0.8 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libcurl4 libedit2 liberror-prone-java libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfido2-1 libfmt9 libgenomicsdb-jni libgenomicsdb0 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibverbs1 libicu72 libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblightcouch-java liblog4j2-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmongodb-java libmunge2 libmuparserx4.0.11 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2 libprotobuf-java libprotobuf-java-format-java libprotobuf32 libpsl5 libpsm-infinipath1 libpsm2-2 librdmacm1 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh2-1 libssl3 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 ncbi-vdb-data ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client Suggested packages: libatinject-jsr330-api-java-doc libasm-java libxz-java libcommons-io-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java libgoogle-gson-java-doc krb5-doc krb5-user picard-tools python3 libhwloc-contrib-plugins libjson-simple-doc libjsr305-java-doc 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 pciutils libjackson2-core-java libjackson2-dataformat-smile rhino opencl-icd gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass Recommended packages: ca-certificates krb5-locales libldap-common publicsuffix libsasl2-modules xauth The following NEW packages will be installed: ibverbs-providers libapache-pom-java libatinject-jsr330-api-java libatomic1 libbrotli1 libbsd0 libcbor0.8 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libcurl4 libedit2 liberror-prone-java libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfido2-1 libfmt9 libgenomicsdb-java libgenomicsdb-jni libgenomicsdb0 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibverbs1 libicu72 libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblightcouch-java liblog4j2-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmongodb-java libmunge2 libmuparserx4.0.11 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2 libprotobuf-java libprotobuf-java-format-java libprotobuf32 libpsl5 libpsm-infinipath1 libpsm2-2 librdmacm1 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh2-1 libssl3 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 ncbi-vdb-data ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client 0 upgraded, 94 newly installed, 0 to remove and 0 not upgraded. Need to get 44.0 MB of archives. After this operation, 123 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libcbor0.8 amd64 0.8.0-2+b1 [27.4 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.15-1~deb12u1 [2025 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 libfido2-1 amd64 1.12.0-2+b1 [77.2 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:9 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 openssh-client amd64 1:9.2p1-2+deb12u3 [991 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libnl-3-200 amd64 3.7.0-0.2+b1 [63.1 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libnl-route-3-200 amd64 3.7.0-0.2+b1 [185 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libibverbs1 amd64 44.0-2 [60.7 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 ibverbs-providers amd64 44.0-2 [335 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 29-2 [5276 B] Get:17 http://deb.debian.org/debian bookworm/main amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get:18 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:19 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 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amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u8 [390 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libguava-java all 31.1-1 [2613 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-8 [131 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-8 [53.6 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.2 [168 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libnuma1 amd64 2.0.16-1 [21.0 kB] Get:41 http://deb.debian.org/debian bookworm/main 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http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 libxnvctrl0 amd64 525.85.05-3~deb12u1 [13.5 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 ocl-icd-libopencl1 amd64 2.3.1-1 [43.0 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 libhwloc-plugins amd64 2.9.0-1 [17.5 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 libpmix2 amd64 4.2.2-1+deb12u1 [622 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 libucx0 amd64 1.13.1-1 [860 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 libopenmpi3 amd64 4.1.4-3+b1 [2422 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 openmpi-common all 4.1.4-3 [167 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 openmpi-bin amd64 4.1.4-3+b1 [226 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libgenomicsdb0 amd64 1.4.4-3 [1527 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 libgenomicsdb-jni amd64 1.4.4-3 [126 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 libgenomicsdb-java all 1.4.4-3 [392 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 44.0 MB in 1s (40.9 MB/s) Selecting previously unselected package libbsd0: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 ... 6093 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.11.7-2_amd64.deb ... Unpacking libbsd0:amd64 (0.11.7-2) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../01-libedit2_3.1-20221030-2_amd64.deb ... Unpacking libedit2:amd64 (3.1-20221030-2) ... Selecting previously unselected package libcbor0.8:amd64. Preparing to unpack .../02-libcbor0.8_0.8.0-2+b1_amd64.deb ... Unpacking libcbor0.8:amd64 (0.8.0-2+b1) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../03-libssl3_3.0.15-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.15-1~deb12u1) ... Selecting previously unselected package libfido2-1:amd64. Preparing to unpack .../04-libfido2-1_1.12.0-2+b1_amd64.deb ... Unpacking libfido2-1:amd64 (1.12.0-2+b1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../05-libkrb5support0_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-2) ... Selecting previously unselected package libkrb5-3:amd64. 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Setting up libcommons-logging-java (1.2-3) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.2+b1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Setting up libcurl4:amd64 (7.88.1-10+deb12u8) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libcommons-codec-java (1.15-1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libibverbs1:amd64 (44.0-2) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up ibverbs-providers:amd64 (44.0-2) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up openssh-client (1:9.2p1-2+deb12u3) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libxnvctrl0:amd64 (525.85.05-3~deb12u1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libngs-java:amd64 (3.0.3+dfsg-6~deb12u1) ... Setting up libhtsjdk-java (3.0.4+dfsg-2) ... Setting up librdmacm1:amd64 (44.0-2) ... Setting up libucx0:amd64 (1.13.1-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libhwloc-plugins:amd64 (2.9.0-1) ... Setting up libfabric1:amd64 (1.17.0-3) ... Setting up libpmix2:amd64 (4.2.2-1+deb12u1) ... Setting up libopenmpi3:amd64 (4.1.4-3+b1) ... Setting up openmpi-bin (4.1.4-3+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libgenomicsdb0 (1.4.4-3) ... Setting up libgenomicsdb-jni (1.4.4-3) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libguava-java (31.1-1) ... Setting up libgenomicsdb-java (1.4.4-3) ... Processing triggers for libc-bin (2.36-9+deb12u9) ... 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m6.4s INFO: Running scripts post_install 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m6.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m6.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m6.7s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp5ngmsbn0 to testing 0m6.7s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m6.7s INFO: Running scripts pre_distupgrade 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m8.3s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [175 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9393 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6297 kB] Fetched 15.9 MB in 1s (13.6 MB/s) Reading package lists... 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m17.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: ibverbs-providers libamd-comgr2 libamdhip64-5 libapache-pom-java libatinject-jsr330-api-java libatomic1 libbrotli1 libcbor0.10 libcbor0.8 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-logging-java libcommons-parent-java libcurl4 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 liberror-prone-java libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libfabric1 libfido2-1 libfmt9 libgenomicsdb0 libgetopt-java libgomp1 libgoogle-gson-java libgssapi-krb5-2 libguava-java libhsa-runtime64-1 libhsakmt1 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libicu72 libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblightcouch-java libllvm17t64 liblog4j2-java libmbedcrypto16 libmbedcrypto7 libmbedtls14 libmbedtls21 libmbedx509-1 libmbedx509-7 libmjson-java libmongodb-java libmunge2 libmuparserx4.0.11 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi40 libpciaccess0 libpmix2t64 libprotobuf-java libprotobuf-java-format-java libprotobuf32 libpsl5 libpsm-infinipath1 libpsm2-2 librdmacm1t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh2-1 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 libz3-4 ncbi-vdb-data ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0 libdb5.3 libevent-core-2.1-7 libevent-pthreads-2.1-7 libext2fs2 libgenomicsdb-java libgenomicsdb-jni libgnutls30 libhogweed6 libnettle8 libopenmpi3 libpmix2 librdmacm1 libssl3 The following NEW packages will be installed: gcc-14-base libamd-comgr2 libamdhip64-5 libapt-pkg6.0t64 libcbor0.10 libdb5.3t64 libdrm-amdgpu1 libdrm-common libdrm2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libext2fs2t64 libgnutls30t64 libhogweed6t64 libhsa-runtime64-1 libhsakmt1 libibmad5 libibumad3 libllvm17t64 libmbedcrypto16 libmbedtls21 libmbedx509-7 libnettle8t64 libopenmpi40 libpmix2t64 librdmacm1t64 libssl3t64 libunistring5 libz3-4 login.defs openssl-provider-legacy The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils gcc-12-base gpgv grep gzip hostname ibverbs-providers init-system-helpers libacl1 libapache-pom-java libatomic1 libattr1 libaudit-common libaudit1 libblkid1 libbrotli1 libbsd0 libbz2-1.0 libc-bin libc6 libcap-ng0 libcap2 libcom-err2 libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-logging-java libcrypt1 libdebconfclient0 libedit2 libfabric1 libffi8 libfido2-1 libgcc-s1 libgcrypt20 libgmp10 libgomp1 libgoogle-gson-java libgpg-error0 libgssapi-krb5-2 libguava-java libhtsjdk-java libhwloc-plugins libhwloc15 libibverbs1 libicu72 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblz4-1 liblzma5 libmd0 libmount1 libmunge2 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnuma1 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpciaccess0 libpcre2-8-0 libprotobuf-java libpsm-infinipath1 libpsm2-2 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsnappy-java libsnappy-jni libsnappy1v5 libss2 libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libucx0 libudev1 libuuid1 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 libxxhash0 libzstd1 login logsave mawk mount ncbi-vdb-data ncurses-base ncurses-bin ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client passwd perl-base sed sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra zlib1g 140 upgraded, 32 newly installed, 14 to remove and 0 not upgraded. Need to get 121 MB of archives. After this operation, 255 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.6 [72.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.40-4 [2804 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.40-4 [626 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-8 [47.2 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-8 [72.7 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.21 [92.1 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.37-1 [1501 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libcap2 amd64 1:2.66-5+b1 [27.8 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 257.1-4 [450 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-12 [106 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-3 [560 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libzstd1 amd64 1.5.6+dfsg-1+b1 [300 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.274 [10.1 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.44-5 [275 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.7-3+b1 [77.0 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.5 [53.1 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 login.defs all 1:4.16.0-7 [185 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-9 [704 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:4.0.2-2 [12.7 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-4 [17.3 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:4.0.2-2 [54.9 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.40.0-8 [1675 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.87 [119 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.5.3-7+b1 [68.3 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.5.3-7+b1 [54.1 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.5.3-7+b1 [267 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2+b1 [32.9 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-2 [22.7 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2+b1 [36.3 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-2 [131 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.7-2 [7108 B] Get:34 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.7-2+b1 [91.2 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.16.0-7 [1233 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5-2+b1 [344 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 257.1-4 [148 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1+b1 [88.9 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libfido2-1 amd64 1.15.0-1+b1 [78.7 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2~rc1-2 [23.8 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:51 http://deb.debian.org/debian trixie/main amd64 openssh-client amd64 1:9.9p1-3 [991 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 openssl-provider-legacy amd64 3.3.2-2 [298 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.3.2-2 [2271 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.5-1+b1 [2922 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.51-2 [82.1 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-8 [714 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.17 [1113 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10-1+b1 [305 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10-1+b1 [335 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.8-2 [1454 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.17 [1368 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.19+dfsg-1 [187 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.19.0-3+b3 [49.5 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.2-2+b2 [26.6 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.9.4-3+b1 [60.3 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.6.3-1+b1 [272 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3.1 [815 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.12-1.2 [134 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.25 [11.0 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.40.2-12 [81.8 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5-2+b1 [434 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-12 [168 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-12 [199 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-12 [139 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-12 [36.0 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-12 [1209 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.40.2-12 [265 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.45-2 [219 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-2 [47.8 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 usr-is-merged all 39+nmu2 [5936 B] Get:96 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.67 [38.7 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5-2 [270 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.11-1 [33.1 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 openmpi-bin amd64 5.0.6-3 [188 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:107 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 libxnvctrl0 amd64 535.171.04-1+b1 [14.2 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 ocl-icd-libopencl1 amd64 2.3.2-1+b2 [40.2 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libhwloc15 amd64 2.11.2-1 [164 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libhwloc-plugins amd64 2.11.2-1 [18.1 kB] Get:114 http://deb.debian.org/debian trixie/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libnl-route-3-200 amd64 3.7.0-0.3+b1 [182 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libnl-3-200 amd64 3.7.0-0.3+b1 [59.4 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libibverbs1 amd64 52.0-2+b1 [62.2 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 ibverbs-providers amd64 52.0-2+b1 [343 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:120 http://deb.debian.org/debian trixie/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3 [170 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libnuma1 amd64 2.0.18-1+b1 [22.3 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libllvm17t64 amd64 1:17.0.6-18 [23.6 MB] Get:125 http://deb.debian.org/debian trixie/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get:126 http://deb.debian.org/debian trixie/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get:127 http://deb.debian.org/debian trixie/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 libhsakmt1 amd64 5.7.0-1 [60.7 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 libhsa-runtime64-1 amd64 5.7.1-3 [510 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 libamdhip64-5 amd64 5.7.1-5 [8877 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 libibumad3 amd64 52.0-2+b1 [28.2 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 libibmad5 amd64 52.0-2+b1 [43.4 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 libucx0 amd64 1.17.0+ds-3 [1130 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 librdmacm1t64 amd64 52.0-2+b1 [70.4 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 libfabric1 amd64 1.17.0-3.1 [631 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 libmunge2 amd64 0.5.15-4+b1 [20.0 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 libpmix2t64 amd64 5.0.5-1 [652 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 libopenmpi40 amd64 5.0.6-3 [2360 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 openmpi-common all 5.0.6-3 [97.0 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.2~rc1-2 [23.6 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.2~rc1-2 [211 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.2~rc1-2 [588 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-12 [155 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 mawk amd64 1.3.4.20240905-1 [138 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024b-4 [256 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 libapache-pom-java all 33-2 [5852 B] Get:151 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 libcommons-codec-java all 1.17.1-1 [303 kB] Get:153 http://deb.debian.org/debian trixie/main amd64 libcommons-io-java all 2.17.0-1 [488 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1189 kB] Get:163 http://deb.debian.org/debian trixie/main amd64 libngs-java amd64 3.0.9+dfsg-7+b1 [112 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 libngs-jni amd64 3.0.9+dfsg-7+b1 [25.8 kB] Get:165 http://deb.debian.org/debian trixie/main amd64 libncbi-ngs3 amd64 3.0.9+dfsg-7+b1 [157 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1+b1 [29.6 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 libsnappy-jni amd64 1.1.10.7-1 [6492 B] Get:168 http://deb.debian.org/debian trixie/main amd64 libsnappy-java all 1.1.10.7-1 [87.6 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 libhtsjdk-java all 4.1.3+dfsg-1 [1841 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 libprotobuf-java all 3.21.12-10 [1268 kB] Get:172 http://deb.debian.org/debian trixie/main amd64 libss2 amd64 1.47.2~rc1-2 [28.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 121 MB in 1s (177 MB/s) (Reading database ... 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(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 ... 8161 files and directories currently installed.) Preparing to unpack .../libc6_2.40-4_amd64.deb ... Unpacking libc6:amd64 (2.40-4) over (2.36-9+deb12u9) ... Setting up libc6:amd64 (2.40-4) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8170 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.5_amd64.deb ... Unpacking base-passwd (3.6.5) over (3.6.1) ... Setting up base-passwd (3.6.5) ... Selecting previously unselected package login.defs. (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 ... 8173 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.16.0-7_all.deb ... Unpacking login.defs (1:4.16.0-7) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up login.defs (1:4.16.0-7) ... Installing new version of config file /etc/login.defs ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8177 files and directories currently installed.) Removing libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libdb5.3t64: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 ... 8171 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-9_amd64.deb ... Unpacking libdb5.3t64:amd64 (5.3.28+dfsg2-9) ... Setting up libdb5.3t64:amd64 (5.3.28+dfsg2-9) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8180 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.3-7+b1_amd64.deb ... Unpacking libpam0g:amd64 (1.5.3-7+b1) over (1.5.2-6+deb12u1) ... Setting up libpam0g:amd64 (1.5.3-7+b1) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8180 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-7+b1_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-7+b1) over (1.5.2-6+deb12u1) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu/security': Directory not empty Setting up libpam-modules:amd64 (1.5.3-7+b1) ... Installing new version of config file /etc/security/namespace.init ... (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 ... 8181 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.2-2+b1_amd64.deb ... Unpacking libacl1:amd64 (2.3.2-2+b1) over (2.3.1-3) ... Setting up libacl1:amd64 (2.3.2-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8182 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.5.2-2_amd64.deb ... Unpacking libattr1:amd64 (1:2.5.2-2) over (1:2.5.1-4) ... Setting up libattr1:amd64 (1:2.5.2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8182 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-2+b1_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-2+b1) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8183 files and directories currently installed.) Preparing to unpack .../libbsd0_0.12.2-2_amd64.deb ... Unpacking libbsd0:amd64 (0.12.2-2) over (0.11.7-2) ... Setting up libbsd0:amd64 (0.12.2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8183 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.7-2_all.deb ... Unpacking libsemanage-common (3.7-2) over (3.4-1) ... Setting up libsemanage-common (3.7-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8182 files and directories currently installed.) Preparing to unpack .../libsepol2_3.7-1_amd64.deb ... Unpacking libsepol2:amd64 (3.7-1) over (3.4-2.1) ... Setting up libsepol2:amd64 (3.7-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8182 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.8-6_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.8-6) over (1.0.8-5+b1) ... Setting up libbz2-1.0:amd64 (1.0.8-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8181 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.7-2+b1_amd64.deb ... Unpacking libsemanage2:amd64 (3.7-2+b1) over (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.7-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8181 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.16.0-7_amd64.deb ... Unpacking passwd (1:4.16.0-7) over (1:4.13+dfsg1-1+b1) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up passwd (1:4.16.0-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8170 files and directories currently installed.) Preparing to unpack .../archives/adduser_3.137_all.deb ... Unpacking adduser (3.137) over (3.134) ... Setting up adduser (3.137) ... Installing new version of config file /etc/adduser.conf ... (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 ... 8164 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.5-2+b1_amd64.deb ... Unpacking libtinfo6:amd64 (6.5-2+b1) over (6.4-4) ... Setting up libtinfo6:amd64 (6.5-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8165 files and directories currently installed.) Preparing to unpack .../libedit2_3.1-20240808-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20240808-1) over (3.1-20221030-2) ... Selecting previously unselected package libcbor0.10:amd64. Preparing to unpack .../libcbor0.10_0.10.2-2_amd64.deb ... Unpacking libcbor0.10:amd64 (0.10.2-2) ... Preparing to unpack .../libudev1_257.1-4_amd64.deb ... Unpacking libudev1:amd64 (257.1-4) over (252.31-1~deb12u1) ... Setting up libudev1:amd64 (257.1-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8172 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1+b1) over (1:1.2.13.dfsg-1) ... Setting up zlib1g:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8173 files and directories currently installed.) Preparing to unpack .../0-libfido2-1_1.15.0-1+b1_amd64.deb ... Unpacking libfido2-1:amd64 (1.15.0-1+b1) over (1.12.0-2+b1) ... Preparing to unpack .../1-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) over (1.20.1-2+deb12u2) ... Preparing to unpack .../2-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) over (1.20.1-2+deb12u2) ... Preparing to unpack .../3-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) over (1.20.1-2+deb12u2) ... Preparing to unpack .../4-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) over (1.20.1-2+deb12u2) ... Preparing to unpack .../5-libcom-err2_1.47.2~rc1-2_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2~rc1-2) over (1.47.0-2) ... Preparing to unpack .../6-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) over (1.6.3-2) ... Preparing to unpack .../7-openssh-client_1%3a9.9p1-3_amd64.deb ... Unpacking openssh-client (1:9.9p1-3) over (1:9.2p1-2+deb12u3) ... dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: libssh2-1:amd64 depends on libssl3 (>= 3.0.0). libgenomicsdb0 depends on libssl3 (>= 3.0.0). libcurl4:amd64 depends on libssl3 (>= 3.0.0). (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 ... 8175 files and directories currently installed.) Removing libssl3:amd64 (3.0.15-1~deb12u1) ... Selecting previously unselected package openssl-provider-legacy. (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 ... 8163 files and directories currently installed.) Preparing to unpack .../openssl-provider-legacy_3.3.2-2_amd64.deb ... Unpacking openssl-provider-legacy (3.3.2-2) ... Selecting previously unselected package libssl3t64:amd64. Preparing to unpack .../libssl3t64_3.3.2-2_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.2-2) ... Setting up libssl3t64:amd64 (3.3.2-2) ... Setting up openssl-provider-legacy (3.3.2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8182 files and directories currently installed.) Preparing to unpack .../coreutils_9.5-1+b1_amd64.deb ... Unpacking coreutils (9.5-1+b1) over (9.1-1) ... Setting up coreutils (9.5-1+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8188 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-9_amd64.deb ... Unpacking dash (0.5.12-9) over (0.5.12-2) ... Setting up dash (0.5.12-9) ... Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' (Reading database ... (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 ... 8185 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.10-1_amd64.deb ... Unpacking diffutils (1:3.10-1) over (1:3.8-4) ... Setting up diffutils (1:3.10-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8187 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.51-2_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-2) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.51-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8187 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.11.0-6_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-6) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.11.0-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8187 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-8_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-8) over (12.2.0-14) ... Setting up libstdc++6:amd64 (14.2.0-8) ... dpkg: libapt-pkg6.0:amd64: dependency problems, but removing anyway as you requested: apt depends on libapt-pkg6.0 (>= 2.6.1). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8187 files and directories currently installed.) Removing libapt-pkg6.0:amd64 (2.6.1) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libnettle8. libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.7~). Removing libnettle8:amd64 (3.8.1-2) ... Selecting previously unselected package libapt-pkg6.0t64: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 ... 8130 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.17_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.17) ... Setting up libapt-pkg6.0t64:amd64 (2.9.17) ... Selecting previously unselected package libnettle8t64: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 ... 8180 files and directories currently installed.) Preparing to unpack .../libnettle8t64_3.10-1+b1_amd64.deb ... Unpacking libnettle8t64:amd64 (3.10-1+b1) ... Setting up libnettle8t64:amd64 (3.10-1+b1) ... dpkg: libhogweed6:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libhogweed6. libgnutls30:amd64 depends on libhogweed6 (>= 3.6). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8190 files and directories currently installed.) Removing libhogweed6:amd64 (3.8.1-2) ... Selecting previously unselected package libhogweed6t64: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 ... 8184 files and directories currently installed.) Preparing to unpack .../libhogweed6t64_3.10-1+b1_amd64.deb ... Unpacking libhogweed6t64:amd64 (3.10-1+b1) ... Setting up libhogweed6t64:amd64 (3.10-1+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8192 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libunistring5: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 ... 8192 files and directories currently installed.) Preparing to unpack .../libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Setting up libunistring5:amd64 (1.3-1) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: librtmp1:amd64 depends on libgnutls30 (>= 3.6.14). libldap-2.5-0:amd64 depends on libgnutls30 (>= 3.7.5). apt depends on libgnutls30 (>= 3.7.5). (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 ... 8198 files and directories currently installed.) Removing libgnutls30:amd64 (3.7.9-2+deb12u3) ... Selecting previously unselected package libgnutls30t64: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 ... 8169 files and directories currently installed.) Preparing to unpack .../libgnutls30t64_3.8.8-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.8-2) ... Setting up libgnutls30t64:amd64 (3.8.8-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8198 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.17_amd64.deb ... Unpacking apt (2.9.17) over (2.6.1) ... Setting up apt (2.9.17) ... (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 ... 8185 files and directories currently installed.) Preparing to unpack .../libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) over (2.1.28+dfsg-10) ... Preparing to unpack .../libldap-2.5-0_2.5.19+dfsg-1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.19+dfsg-1) over (2.5.13+dfsg-5) ... Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) over (2.4+20151223.gitfa8646d.1-2+b2) ... Preparing to unpack .../libffi8_3.4.6-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.6-1) over (3.4.4-1) ... Setting up libffi8:amd64 (3.4.6-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8184 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.7-2+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2+b1) over (2.3.3-1+b1) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8185 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b3) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b3) ... (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 ... 8186 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.2-2+b2_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.2-2+b2) over (0.8.1-1) ... Setting up libxxhash0:amd64 (0.8.2-2+b2) ... (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 ... 8187 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.9.4-3+b1_amd64.deb ... Unpacking liblz4-1:amd64 (1.9.4-3+b1) over (1.9.4-1) ... Setting up liblz4-1:amd64 (1.9.4-3+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8188 files and directories currently installed.) Preparing to unpack .../liblzma5_5.6.3-1+b1_amd64.deb ... Unpacking liblzma5:amd64 (5.6.3-1+b1) over (5.4.1-0.2) ... Setting up liblzma5:amd64 (5.6.3-1+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8189 files and directories currently installed.) Preparing to unpack .../tar_1.35+dfsg-3.1_amd64.deb ... Unpacking tar (1.35+dfsg-3.1) over (1.34+dfsg-1.2+deb12u1) ... Setting up tar (1.35+dfsg-3.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8190 files and directories currently installed.) Preparing to unpack .../dpkg_1.22.11_amd64.deb ... Unpacking dpkg (1.22.11) over (1.21.22) ... Setting up dpkg (1.22.11) ... (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 ... 8177 files and directories currently installed.) Preparing to unpack .../findutils_4.10.0-3_amd64.deb ... Unpacking findutils (4.10.0-3) over (4.9.0-4) ... Setting up findutils (4.10.0-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8175 files and directories currently installed.) Preparing to unpack .../archives/grep_3.11-4_amd64.deb ... Unpacking grep (3.11-4) over (3.8-5) ... Setting up grep (3.11-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8175 files and directories currently installed.) Preparing to unpack .../gzip_1.12-1.2_amd64.deb ... Unpacking gzip (1.12-1.2) over (1.12-1) ... dpkg: warning: old file '/bin/uncompress' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') dpkg: warning: old file '/bin/gunzip' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') Setting up gzip (1.12-1.2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8175 files and directories currently installed.) Preparing to unpack .../hostname_3.25_amd64.deb ... Unpacking hostname (3.25) over (3.23+nmu1) ... Setting up hostname (3.25) ... (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 ... 8175 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.5.3-7_all.deb ... Unpacking libpam-runtime (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam-runtime (1.5.3-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8174 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-12_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-12) over (1:4.13+dfsg1-1+b1) ... Setting up login (1:4.16.0-2+really2.40.2-12) ... Installing new version of config file /etc/pam.d/login ... (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 ... 8101 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.5-2+b1_amd64.deb ... Unpacking ncurses-bin (6.5-2+b1) over (6.4-4) ... Setting up ncurses-bin (6.5-2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8102 files and directories currently installed.) Preparing to unpack .../archives/sed_4.9-2_amd64.deb ... Unpacking sed (4.9-2) over (4.9-1) ... Setting up sed (4.9-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8102 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.2-12_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-12) over (2.38.1-5+deb12u2) ... Setting up libblkid1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8103 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-12_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-12) over (2.38.1-5+deb12u2) ... Setting up libmount1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8104 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-12_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-12) over (2.38.1-5+deb12u2) ... Setting up libsmartcols1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8105 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.2-12_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-12) over (2.38.1-5+deb12u2) ... Setting up libuuid1:amd64 (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8106 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-12_amd64.deb ... Unpacking util-linux (2.40.2-12) over (2.38.1-5+deb12u2) ... Setting up util-linux (2.40.2-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8073 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.40.2-12_amd64.deb ... Adding 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.40.2-12) over (2.38.1-5+deb12u2) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/etc/init.d': Directory not empty Setting up util-linux-extra (2.40.2-12) ... (Reading database ... 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(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 ... 8111 files and directories currently installed.) Preparing to unpack .../openmpi-bin_5.0.6-3_amd64.deb ... Unpacking openmpi-bin (5.0.6-3) over (4.1.4-3+b1) ... (Reading database ... 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Unpacking libxnvctrl0:amd64 (535.171.04-1+b1) over (525.85.05-3~deb12u1) ... Preparing to unpack .../11-ocl-icd-libopencl1_2.3.2-1+b2_amd64.deb ... Unpacking ocl-icd-libopencl1:amd64 (2.3.2-1+b2) over (2.3.1-1) ... Preparing to unpack .../12-libhwloc15_2.11.2-1_amd64.deb ... Unpacking libhwloc15:amd64 (2.11.2-1) over (2.9.0-1) ... Preparing to unpack .../13-libhwloc-plugins_2.11.2-1_amd64.deb ... Unpacking libhwloc-plugins:amd64 (2.11.2-1) over (2.9.0-1) ... Selecting previously unselected package libevent-pthreads-2.1-7t64:amd64. Preparing to unpack .../14-libevent-pthreads-2.1-7t64_2.1.12-stable-10+b1_amd64.deb ... Unpacking libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Preparing to unpack .../15-libnl-route-3-200_3.7.0-0.3+b1_amd64.deb ... Unpacking libnl-route-3-200:amd64 (3.7.0-0.3+b1) over (3.7.0-0.2+b1) ... Preparing to unpack .../16-libnl-3-200_3.7.0-0.3+b1_amd64.deb ... Unpacking libnl-3-200:amd64 (3.7.0-0.3+b1) over (3.7.0-0.2+b1) ... 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Unpacking libucx0:amd64 (1.17.0+ds-3) over (1.13.1-1) ... dpkg: librdmacm1:amd64: dependency problems, but removing anyway as you requested: libfabric1:amd64 depends on librdmacm1 (>= 23). (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 ... 7941 files and directories currently installed.) Removing librdmacm1:amd64 (44.0-2) ... Selecting previously unselected package librdmacm1t64:amd64. (Reading database ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:amd64 (1.47.2~rc1-2) ... Setting up libcom-err2:amd64 (1.47.2~rc1-2) ... Setting up libext2fs2t64:amd64 (1.47.2~rc1-2) ... (Reading database ... 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Unpacking e2fsprogs (1.47.2~rc1-2) over (1.47.0-2) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd': Directory not empty Preparing to unpack .../01-mount_2.40.2-12_amd64.deb ... Unpacking mount (2.40.2-12) over (2.38.1-5+deb12u2) ... Preparing to unpack .../02-mawk_1.3.4.20240905-1_amd64.deb ... Unpacking mawk (1.3.4.20240905-1) over (1.3.4.20200120-3.1) ... Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) over (2024a-0+deb12u1) ... Preparing to unpack .../04-gcc-12-base_12.4.0-2_amd64.deb ... Unpacking gcc-12-base:amd64 (12.4.0-2) over (12.2.0-14) ... Preparing to unpack .../05-libapache-pom-java_33-2_all.deb ... Unpacking libapache-pom-java (33-2) over (29-2) ... 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Preparing to unpack .../13-libmbedcrypto16_3.6.2-3_amd64.deb ... Unpacking libmbedcrypto16:amd64 (3.6.2-3) ... Selecting previously unselected package libmbedx509-7:amd64. Preparing to unpack .../14-libmbedx509-7_3.6.2-3_amd64.deb ... Unpacking libmbedx509-7:amd64 (3.6.2-3) ... Selecting previously unselected package libmbedtls21:amd64. Preparing to unpack .../15-libmbedtls21_3.6.2-3_amd64.deb ... Unpacking libmbedtls21:amd64 (3.6.2-3) ... Preparing to unpack .../16-ncbi-vdb-data_3.0.9+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.0.9+dfsg-2) over (3.0.2+dfsg-2) ... Preparing to unpack .../17-libncbi-vdb3_3.0.9+dfsg-2_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.9+dfsg-2) over (3.0.2+dfsg-2) ... Preparing to unpack .../18-libngs-java_3.0.9+dfsg-7+b1_amd64.deb ... Unpacking libngs-java:amd64 (3.0.9+dfsg-7+b1) over (3.0.3+dfsg-6~deb12u1) ... Preparing to unpack .../19-libngs-jni_3.0.9+dfsg-7+b1_amd64.deb ... Unpacking libngs-jni:amd64 (3.0.9+dfsg-7+b1) over (3.0.3+dfsg-6~deb12u1) ... 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Unpacking libss2:amd64 (1.47.2~rc1-2) over (1.47.0-2) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu': Directory not empty Setting up libpciaccess0:amd64 (0.17-3+b2) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up libcbor0.10:amd64 (0.10.2-2) ... Setting up libcommons-io-java (2.17.0-1) ... Setting up libgoogle-gson-java (2.10.1-1) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up libedit2:amd64 (3.1-20240808-1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libibumad3:amd64 (52.0-2+b1) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libibmad5:amd64 (52.0-2+b1) ... Setting up libgomp1:amd64 (14.2.0-8) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libsnappy1v5:amd64 (1.2.1-1+b1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up gcc-12-base:amd64 (12.4.0-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Dec 30 16:57:15 UTC 2024. Universal Time is now: Mon Dec 30 16:57:15 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libmunge2:amd64 (0.5.15-4+b1) ... Setting up libguava-java (32.0.1-1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libapache-pom-java (33-2) ... Setting up libhwloc15:amd64 (2.11.2-1) ... Setting up libatomic1:amd64 (14.2.0-8) ... Setting up libss2:amd64 (1.47.2~rc1-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up logsave (1.47.2~rc1-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libnuma1:amd64 (2.0.18-1+b1) ... Setting up mount (2.40.2-12) ... Setting up ocl-icd-libopencl1:amd64 (2.3.2-1+b2) ... Setting up libnl-3-200:amd64 (3.7.0-0.3+b1) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up openmpi-common (5.0.6-3) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up ncbi-vdb-data (3.0.9+dfsg-2) ... Setting up mawk (1.3.4.20240905-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libmbedcrypto16:amd64 (3.6.2-3) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libfido2-1:amd64 (1.15.0-1+b1) ... Setting up libcommons-codec-java (1.17.1-1) ... Setting up libdrm-common (2.4.123-1) ... Setting up libsnappy-jni (1.1.10.7-1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libprotobuf-java (3.21.12-10) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up e2fsprogs (1.47.2~rc1-2) ... Installing new version of config file /etc/cron.d/e2scrub_all ... Installing new version of config file /etc/mke2fs.conf ... Setting up libldap-2.5-0:amd64 (2.5.19+dfsg-1) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.3+b1) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b1) ... Setting up libmbedx509-7:amd64 (3.6.2-3) ... Setting up libllvm17t64:amd64 (1:17.0.6-18) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libmbedtls21:amd64 (3.6.2-3) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up libsnappy-java (1.1.10.7-1) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up libibverbs1:amd64 (52.0-2+b1) ... Setting up ibverbs-providers:amd64 (52.0-2+b1) ... Setting up openssh-client (1:9.9p1-3) ... Installing new version of config file /etc/ssh/ssh_config ... Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Setting up libhwloc-plugins:amd64 (2.11.2-1) ... Setting up libpmix2t64:amd64 (5.0.5-1) ... Setting up librdmacm1t64:amd64 (52.0-2+b1) ... Setting up libhsakmt1:amd64 (5.7.0-1) ... Setting up libncbi-ngs3:amd64 (3.0.9+dfsg-7+b1) ... Setting up libfabric1:amd64 (1.17.0-3.1) ... Setting up libngs-jni:amd64 (3.0.9+dfsg-7+b1) ... Setting up libhsa-runtime64-1:amd64 (5.7.1-3) ... Setting up libngs-java:amd64 (3.0.9+dfsg-7+b1) ... Setting up libhtsjdk-java (4.1.3+dfsg-1) ... Setting up libamdhip64-5 (5.7.1-5) ... Setting up libucx0:amd64 (1.17.0+ds-3) ... Setting up libopenmpi40:amd64 (5.0.6-3) ... Setting up openmpi-bin (5.0.6-3) ... update-alternatives: warning: forcing reinstallation of alternative /usr/bin/mpirun.openmpi because link group mpirun is broken 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) doesn't exist Processing triggers for debianutils (5.21) ... Processing triggers for libc-bin (2.40-4) ... 0m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m18.4s DUMP: 800a4a91051c37858c95bddf756f30d7 - 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m18.5s INFO: apt-cache does not know about any of the requested packages 0m18.5s INFO: Running scripts post_distupgrade 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m18.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m18.8s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp5ngmsbn0 to sid 0m18.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m18.8s INFO: Running scripts pre_distupgrade 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m20.8s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [205 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9995 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7312 kB] Fetched 17.5 MB in 1s (12.1 MB/s) Reading package lists... 0m20.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'update'] 0m20.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m26.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: ca-certificates-java default-jre-headless ibverbs-providers java-common junit4 libamd-comgr2 libamdhip64-5 libapache-pom-java libatinject-jsr330-api-java libatomic1 libbrotli1 libcbor0.10 libcbor0.8 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 libcurl4 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 liberror-prone-java libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libezmorph-java libfabric1 libfido2-1 libfmt9 libgenomicsdb0 libgetopt-java libgnutls30t64 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 libicu72 libjaxen-java libjpeg62-turbo libjson-java libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblightcouch-java libllvm17t64 liblog4j2-java libmbedcrypto16 libmbedcrypto7 libmbedtls14 libmbedtls21 libmbedx509-1 libmbedx509-7 libmjson-java libmongodb-java libmunge2 libmuparserx4.0.11 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libnuma1 libopenmpi40 libpciaccess0 libpcsclite1 libpmix2t64 libprotobuf-java libprotobuf-java-format-java libprotobuf32 libpsl5 libpsm-infinipath1 libpsm2-2 librdmacm1t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces2-java libxext6 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxnvctrl0 libxom-java libz3-4 ncbi-vdb-data ocl-icd-libopencl1 openjdk-21-jre-headless openmpi-bin openmpi-common openssh-client Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: ca-certificates ca-certificates-java default-jre-headless java-common junit4 libcommons-beanutils-java libcommons-collections3-java libcommons-collections4-java libcommons-lang3-java libezmorph-java libhamcrest-java libjaxen-java libjpeg62-turbo libjson-java liblcms2-2 libnspr4 libnss3 libpcsclite1 libsqlite3-0 libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxom-java openjdk-21-jre-headless openssl sqv The following packages will be upgraded: apt base-passwd bsdutils debconf gcc-14-base init-system-helpers libapt-pkg6.0t64 libatomic1 libblkid1 libdebconfclient0 libgcc-s1 libgcrypt20 libgomp1 libgpg-error0 libhsa-runtime64-1 libhsakmt1 libhtsjdk-java libllvm17t64 libmount1 librhino-java libsmartcols1 libstdc++6 libsystemd0 libudev1 libuuid1 libzstd1 login mount util-linux util-linux-extra 30 upgraded, 26 newly installed, 0 to remove and 0 not upgraded. Need to get 87.0 MB of archives. After this operation, 222 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-13 [106 kB] Get:2 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.40.2-13 [265 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-13 [36.1 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-13 [168 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-13 [199 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-13 [139 kB] Get:7 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-13 [1209 kB] Get:8 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-13 [155 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-11 [9284 B] Get:10 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-11 [137 kB] Get:11 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-11 [48.0 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-11 [72.7 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-11 [713 kB] Get:14 http://deb.debian.org/debian sid/main amd64 sqv amd64 1.2.1-5 [615 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 257.1-5 [449 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 257.1-5 [148 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.6+dfsg-2 [300 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.20 [1114 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.276 [10.3 kB] Get:20 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.6 [53.1 kB] Get:21 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.20 [1390 kB] Get:22 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.68 [38.7 kB] Get:23 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-13 [81.9 kB] Get:24 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.89 [120 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.51-3 [82.2 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.11.0-7 [843 kB] Get:27 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:28 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20241223 [164 kB] Get:29 http://deb.debian.org/debian sid/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get:30 http://deb.debian.org/debian sid/main amd64 java-common all 0.76 [6776 B] Get:31 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libnss3 amd64 2:3.106-1 [1392 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libpcsclite1 amd64 2.3.1-1 [56.0 kB] Get:37 http://deb.debian.org/debian sid/main amd64 openjdk-21-jre-headless amd64 21.0.6~6ea-1 [41.8 MB] Get:38 http://deb.debian.org/debian sid/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get:39 http://deb.debian.org/debian sid/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get:40 http://deb.debian.org/debian sid/main amd64 junit4 all 4.13.2-5 [350 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libcommons-beanutils-java all 1.9.4-2 [233 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libcommons-lang3-java all 3.17.0-1 [641 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libhsakmt1 amd64 6.1.2+ds-1 [59.8 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libhsa-runtime64-1 amd64 6.1.2-2 [535 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libjaxen-java all 1.1.6-5 [214 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libxom-java all 1.3.9-1 [174 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libjson-java all 3.1.0+dfsg-2 [142 kB] Get:54 http://deb.debian.org/debian sid/main amd64 librhino-java all 1.7.15-1 [1382 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libllvm17t64 amd64 1:17.0.6-19 [23.6 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Setting up libnspr4:amd64 (2:4.36-1) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libatomic1:amd64 (14.2.0-11) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libpcsclite1:amd64 (2.3.1-1) ... Setting up libhamcrest-java (2.2-2) ... Setting up libcommons-lang3-java (3.17.0-1) ... Setting up mount (2.40.2-13) ... Setting up libxml-commons-external-java (1.4.01-6) ... Setting up libcommons-beanutils-java (1.9.4-2) ... Setting up libxerces2-java (2.12.2-1) ... Setting up openssl (3.3.2-2) ... Setting up libezmorph-java (1.0.6-4) ... Setting up libhsakmt1:amd64 (6.1.2+ds-1) ... Setting up util-linux-extra (2.40.2-13) ... Setting up login (1:4.16.0-2+really2.40.2-13) ... Setting up libnss3:amd64 (2:3.106-1) ... Setting up libxom-java (1.3.9-1) ... Setting up ca-certificates (20241223) ... Updating certificates in /etc/ssl/certs... 152 added, 0 removed; done. Setting up libhsa-runtime64-1:amd64 (6.1.2-2) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up openjdk-21-jre-headless:amd64 (21.0.6~6ea-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Processing triggers for libc-bin (2.40-4) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian: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:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian: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_RootCA11.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_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:TeliaSonera_Root_CA_v1.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:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up junit4 (4.13.2-5) ... Setting up default-jre-headless (2:1.21-76) ... Setting up libjson-java (3.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Processing triggers for ca-certificates (20241223) ... 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 (20240118) ... done. 0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-yf', 'dist-upgrade'] 0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m27.3s DUMP: 5b4e406541c98f6e1b6fa7ff8399997f - 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m27.5s DUMP: Package: libgenomicsdb-java Source: genomicsdb Version: 1.5.4-4 Installed-Size: 493 Maintainer: Debian Med Packaging Team Architecture: all Depends: libcommons-io-java (>= 2.17.0), libgetopt-java, libgoogle-gson-java, libguava-java, libhtsjdk-java (>= 4.1.3), libjson-simple-java, liblog4j2-java (>= 2.19.0), libprotobuf-java, libgenomicsdb-jni (>= 1.5.4-4), libgenomicsdb-jni (<< 1.5.4-4.1~) 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_1.5.4-4_all.deb Size: 409656 MD5sum: f63beb98c92f3fefc5bb245a9aabcbad SHA256: 0032b962a6b2dfc923d4b1a1a9387ecd32837e59eba8e00ad65446541c286f10 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'show', '--no-all-versions', 'libgenomicsdb-java'] 0m27.5s INFO: apt-cache knows about the following packages: libgenomicsdb-java 0m27.5s INFO: Running scripts pre_install 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m27.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m27.5s DUMP: libgenomicsdb-java: Installed: (none) Candidate: 1.5.4-4 Version table: 1.5.4-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m28.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libcbor0.8 libfmt9 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmuparserx4.0.11 libprotobuf-java-format-java Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: libcurl4t64 libfmt10 libgenomicsdb-jni libgenomicsdb1 libmuparserx4.0.12 libprotobuf32t64 libpsl5t64 libssh2-1t64 mpi-default-bin Recommended packages: publicsuffix The following packages will be REMOVED: libcurl4 libgenomicsdb0 libprotobuf32 libpsl5 libssh2-1 The following NEW packages will be installed: libcurl4t64 libfmt10 libgenomicsdb-java libgenomicsdb-jni libgenomicsdb1 libmuparserx4.0.12 libprotobuf32t64 libpsl5t64 libssh2-1t64 mpi-default-bin 0 upgraded, 10 newly installed, 5 to remove and 0 not upgraded. Need to get 4070 kB of archives. After this operation, 2634 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.11.1-1 [351 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libfmt10 amd64 10.1.1+ds1-4 [127 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libmuparserx4.0.12 amd64 4.0.12-2 [198 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libprotobuf32t64 amd64 3.21.12-10+b1 [982 kB] Get:7 http://deb.debian.org/debian sid/main amd64 mpi-default-bin amd64 1.18 [2576 B] Get:8 http://deb.debian.org/debian sid/main amd64 libgenomicsdb1 amd64 1.5.4-4 [1615 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libgenomicsdb-jni amd64 1.5.4-4 [83.1 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libgenomicsdb-java all 1.5.4-4 [410 kB] Fetched 4070 kB in 0s (46.6 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8409 files and directories currently installed.) Preparing to unpack .../0-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../1-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../2-libcurl4t64_8.11.1-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.11.1-1) ... Selecting previously unselected package libfmt10:amd64. Preparing to unpack .../3-libfmt10_10.1.1+ds1-4_amd64.deb ... Unpacking libfmt10:amd64 (10.1.1+ds1-4) ... Selecting previously unselected package libmuparserx4.0.12:amd64. Preparing to unpack .../4-libmuparserx4.0.12_4.0.12-2_amd64.deb ... Unpacking libmuparserx4.0.12:amd64 (4.0.12-2) ... Selecting previously unselected package libprotobuf32t64:amd64. Preparing to unpack .../5-libprotobuf32t64_3.21.12-10+b1_amd64.deb ... Unpacking libprotobuf32t64:amd64 (3.21.12-10+b1) ... Selecting previously unselected package mpi-default-bin. Preparing to unpack .../6-mpi-default-bin_1.18_amd64.deb ... Unpacking mpi-default-bin (1.18) ... Selecting previously unselected package libgenomicsdb1. Preparing to unpack .../7-libgenomicsdb1_1.5.4-4_amd64.deb ... Unpacking libgenomicsdb1 (1.5.4-4) ... Selecting previously unselected package libgenomicsdb-jni. Preparing to unpack .../8-libgenomicsdb-jni_1.5.4-4_amd64.deb ... Unpacking libgenomicsdb-jni (1.5.4-4) ... Selecting previously unselected package libgenomicsdb-java. Preparing to unpack .../9-libgenomicsdb-java_1.5.4-4_all.deb ... Unpacking libgenomicsdb-java (1.5.4-4) ... Setting up libprotobuf32t64:amd64 (3.21.12-10+b1) ... Setting up libmuparserx4.0.12:amd64 (4.0.12-2) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up mpi-default-bin (1.18) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libfmt10:amd64 (10.1.1+ds1-4) ... Setting up libcurl4t64:amd64 (8.11.1-1) ... Setting up libgenomicsdb1 (1.5.4-4) ... Setting up libgenomicsdb-jni (1.5.4-4) ... Setting up libgenomicsdb-java (1.5.4-4) ... Processing triggers for libc-bin (2.40-4) ... 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java'] 0m28.3s INFO: Running scripts post_install 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m28.3s INFO: Running scripts post_distupgrade 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_exceptions'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_exceptions'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m28.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m28.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m28.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m28.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m28.9s INFO: Running scripts pre_install 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_database-server'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_exceptions'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_extras'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m28.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m28.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m29.0s 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: 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m29.0s DUMP: libgenomicsdb-java: Installed: 1.5.4-4 Candidate: 1.5.4-4 Version table: *** 1.5.4-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-cache', 'policy', 'libgenomicsdb-java'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java=1.5.4-4'] 0m29.2s DUMP: Reading package lists... Building dependency tree... Reading state information... libgenomicsdb-java is already the newest version (1.5.4-4). The following packages were automatically installed and are no longer required: libcbor0.8 libfmt9 libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmuparserx4.0.11 libprotobuf-java-format-java Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', '-y', 'install', 'libgenomicsdb-java=1.5.4-4'] 0m29.2s INFO: Running scripts post_install 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_install_exceptions'] 0m29.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m29.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m29.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', '-ac', '--ignore-obsolete'] 0m31.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', '-ac', '--ignore-obsolete'] 0m31.2s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m31.2s DUMP: 0.15.6 0m31.2s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m31.2s INFO: Running adequate version 0.15.6 now. 0m31.2s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'libgenomicsdb-java'] 0m31.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'libgenomicsdb-java'] 0m31.2s INFO: Running scripts pre_remove 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m31.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m31.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_exceptions'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/pre_remove_exceptions'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m32.5s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.9.20 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.6 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.2-13 install ok installed ca-certificates ca-certificates 20241223 install ok installed ca-certificates-java ca-certificates-java 20240118 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.89 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed default-jre-headless default-jre-headless 2:1.21-76 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-2 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-11 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.2 install ok installed hostname hostname 3.25 install ok installed ibverbs-providers:amd64 ibverbs-providers 52.0-2+b1 install ok installed init-system-helpers init-system-helpers 1.68 install ok installed java-common java-common 0.76 install ok installed junit4 junit4 4.13.2-5 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libamd-comgr2:amd64 libamd-comgr2 6.0+git20231212.4510c28+dfsg-3+b2 install ok installed libamdhip64-5 libamdhip64-5 5.7.1-5 install ok installed libapache-pom-java libapache-pom-java 33-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.20 install ok installed libatinject-jsr330-api-java libatinject-jsr330-api-java 1.0+ds1-5 install ok installed libatomic1:amd64 libatomic1 14.2.0-11 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblkid1:amd64 libblkid1 2.40.2-13 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b6 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcbor0.10:amd64 libcbor0.10 0.10.2-2 install ok installed libcbor0.8:amd64 libcbor0.8 0.8.0-2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-2 install ok installed libcommons-beanutils-java libcommons-beanutils-java 1.9.4-2 install ok installed libcommons-codec-java libcommons-codec-java 1.17.1-1 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 2.17.0-1 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-6 install ok installed libcommons-lang3-java libcommons-lang3-java 3.17.0-1 install ok installed libcommons-logging-java libcommons-logging-java 1.3.0-1 install ok installed libcommons-parent-java libcommons-parent-java 56-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl4t64:amd64 libcurl4t64 8.11.1-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.276 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.123-1 install ok installed libdrm-common libdrm-common 2.4.123-1 install ok installed libdrm2:amd64 libdrm2 2.4.123-1 install ok installed libedit2:amd64 libedit2 3.1-20240808-1 install ok installed libelf1t64:amd64 libelf1t64 0.192-4 install ok installed liberror-prone-java liberror-prone-java 2.18.0-1 install ok installed libevent-core-2.1-7t64:amd64 libevent-core-2.1-7t64 2.1.12-stable-10+b1 install ok installed libevent-pthreads-2.1-7t64:amd64 libevent-pthreads-2.1-7t64 2.1.12-stable-10+b1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-2 install ok installed libezmorph-java libezmorph-java 1.0.6-4 install ok installed libfabric1:amd64 libfabric1 1.17.0-3.1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfido2-1:amd64 libfido2-1 1.15.0-1+b1 install ok installed libfmt10:amd64 libfmt10 10.1.1+ds1-4 install ok installed libfmt9:amd64 libfmt9 9.1.0+ds1-2 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-11 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-7 install ok installed libgenomicsdb-java libgenomicsdb-java 1.5.4-4 install ok installed libgenomicsdb-jni libgenomicsdb-jni 1.5.4-4 install ok installed libgenomicsdb1 libgenomicsdb1 1.5.4-4 install ok installed libgetopt-java libgetopt-java 1.0.14+dfsg-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-11 install ok installed libgoogle-gson-java libgoogle-gson-java 2.10.1-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-3 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 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 3.10-1+b1 install ok installed libhsa-runtime64-1:amd64 libhsa-runtime64-1 6.1.2-2 install ok installed libhsakmt1:amd64 libhsakmt1 6.1.2+ds-1 install ok installed libhtsjdk-java libhtsjdk-java 4.1.3+dfsg-2 install ok installed libhttpclient-java libhttpclient-java 4.5.14-1 install ok installed libhttpcore-java libhttpcore-java 4.4.16-1 install ok installed libhwloc-plugins:amd64 libhwloc-plugins 2.11.2-1 install ok installed libhwloc15:amd64 libhwloc15 2.11.2-1 install ok installed libibmad5:amd64 libibmad5 52.0-2+b1 install ok installed libibumad3:amd64 libibumad3 52.0-2+b1 install ok installed libibverbs1:amd64 libibverbs1 52.0-2+b1 install ok installed libicu72:amd64 libicu72 72.1-5+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libjaxen-java libjaxen-java 1.1.6-5 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed libjson-java libjson-java 3.1.0+dfsg-2 install ok installed libjson-simple-java libjson-simple-java 2.3.0-1 install ok installed libjsr305-java libjsr305-java 0.1~+svn49-11 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-4 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblcms2-2:amd64 liblcms2-2 2.16-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.19+dfsg-1 install ok installed liblightcouch-java liblightcouch-java 0.2.0-1 install ok installed libllvm17t64:amd64 libllvm17t64 1:17.0.6-19 install ok installed liblog4j2-java liblog4j2-java 2.19.0-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmbedcrypto16:amd64 libmbedcrypto16 3.6.2-3 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.3-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.3-1 install ok installed libmbedtls21:amd64 libmbedtls21 3.6.2-3 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.3-1 install ok installed libmbedx509-7:amd64 libmbedx509-7 3.6.2-3 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmjson-java libmjson-java 1.4.0-3 install ok installed libmongodb-java libmongodb-java 3.6.3-2 install ok installed libmount1:amd64 libmount1 2.40.2-13 install ok installed libmunge2:amd64 libmunge2 0.5.15-4+b1 install ok installed libmuparserx4.0.11:amd64 libmuparserx4.0.11 4.0.11-2 install ok installed libmuparserx4.0.12:amd64 libmuparserx4.0.12 4.0.12-2 install ok installed libncbi-ngs3:amd64 libncbi-ngs3 3.0.9+dfsg-7+b1 install ok installed libncbi-vdb3:amd64 libncbi-vdb3 3.0.9+dfsg-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1 install ok installed libngs-java:amd64 libngs-java 3.0.9+dfsg-7+b1 install ok installed libngs-jni:amd64 libngs-jni 3.0.9+dfsg-7+b1 install ok installed libnl-3-200:amd64 libnl-3-200 3.7.0-0.3+b1 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.7.0-0.3+b1 install ok installed libnspr4:amd64 libnspr4 2:4.36-1 install ok installed libnss3:amd64 libnss3 2:3.106-1 install ok installed libnuma1:amd64 libnuma1 2.0.18-1+b1 install ok installed libopenmpi40:amd64 libopenmpi40 5.0.6-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-3 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3+b2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-5 install ok installed libpcsclite1:amd64 libpcsclite1 2.3.1-1 install ok installed libpmix2t64:amd64 libpmix2t64 5.0.5-1 install ok installed libprotobuf-java libprotobuf-java 3.21.12-10 install ok installed libprotobuf-java-format-java libprotobuf-java-format-java 1.3-1.1 install ok installed libprotobuf32t64:amd64 libprotobuf32t64 3.21.12-10+b1 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libpsm-infinipath1 libpsm-infinipath1 3.3+20.604758e7-6.3 install ok installed libpsm2-2 libpsm2-2 11.2.185-2.1 install ok installed librdmacm1t64:amd64 librdmacm1t64 52.0-2+b1 install ok installed librhino-java librhino-java 1.7.15-1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b5 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-8 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libslf4j-java libslf4j-java 1.7.32-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-13 install ok installed libsnappy-java libsnappy-java 1.1.10.7-1 install ok installed libsnappy-jni libsnappy-jni 1.1.10.7-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.2.1-1+b1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.2~rc1-2 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-11 install ok installed libsystemd0:amd64 libsystemd0 257.1-5 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libucx0:amd64 libucx0 1.17.0+ds-3 install ok installed libudev1:amd64 libudev1 257.1-5 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.3-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-13 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-2 install ok installed libx11-data libx11-data 2:1.8.10-2 install ok installed libxau6:amd64 libxau6 1:1.0.11-1 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1 install ok installed libxerces2-java libxerces2-java 2.12.2-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b2 install ok installed libxml-commons-external-java libxml-commons-external-java 1.4.01-6 install ok installed libxml-commons-resolver1.1-java libxml-commons-resolver1.1-java 1.2-11 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.2+b1 install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1+b1 install ok installed libxom-java libxom-java 1.3.9-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libz3-4:amd64 libz3-4 4.13.3-1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-2 install ok installed login login 1:4.16.0-2+really2.40.2-13 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2~rc1-2 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-13 install ok installed mpi-default-bin mpi-default-bin 1.18 install ok installed ncbi-vdb-data ncbi-vdb-data 3.0.9+dfsg-2 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.3.2-1+b2 install ok installed openjdk-21-jre-headless:amd64 openjdk-21-jre-headless 21.0.6~6ea-1 install ok installed openmpi-bin openmpi-bin 5.0.6-3 install ok installed openmpi-common openmpi-common 5.0.6-3 install ok installed openssh-client openssh-client 1:9.9p1-3 install ok installed openssl openssl 3.3.2-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sqv sqv 1.2.1-5 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2024b-4 install ok installed usr-is-merged usr-is-merged 39+nmu2 install ok installed util-linux util-linux 2.40.2-13 install ok installed util-linux-extra util-linux-extra 2.40.2-13 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'remove', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libatomic1:amd64', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libcbor0.8: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', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfmt9: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', 'libicu72: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', 'libldap-2.5-0:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.11:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf-java-format-java', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libucx0: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:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'libgenomicsdb-java'] 0m33.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libgnutls30t64 Use 'sudo apt autoremove' to remove it. The following packages will be REMOVED: ca-certificates ca-certificates-java default-jre-headless ibverbs-providers java-common junit4 libamd-comgr2 libamdhip64-5 libapache-pom-java libatinject-jsr330-api-java libatomic1 libbrotli1 libcbor0.10 libcbor0.8 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 libfido2-1 libfmt10 libfmt9 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 libicu72 libjaxen-java libjpeg62-turbo libjson-java libjson-simple-java libjsr305-java libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 libldap-2.5-0 liblightcouch-java libllvm17t64 liblog4j2-java libmbedcrypto16 libmbedcrypto7 libmbedtls14 libmbedtls21 libmbedx509-1 libmbedx509-7 libmjson-java libmongodb-java libmunge2 libmuparserx4.0.11 libmuparserx4.0.12 libncbi-ngs3 libncbi-vdb3 libnghttp2-14 libngs-java libngs-jni libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libnuma1 libopenmpi40 libpciaccess0 libpcsclite1 libpmix2t64 libprotobuf-java libprotobuf-java-format-java libprotobuf32t64 libpsl5t64 libpsm-infinipath1 libpsm2-2 librdmacm1t64 librhino-java librtmp1 libsasl2-2 libsasl2-modules-db libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libsqlite3-0 libssh2-1t64 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces2-java libxext6 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxnvctrl0 libxom-java libz3-4 mpi-default-bin ncbi-vdb-data ocl-icd-libopencl1 openjdk-21-jre-headless openmpi-bin openmpi-common openssh-client openssl 0 upgraded, 0 newly installed, 136 to remove and 0 not upgraded. After this operation, 588 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 ... 8485 files and directories currently installed.) Removing libgenomicsdb-java (1.5.4-4) ... Removing libhtsjdk-java (4.1.3+dfsg-2) ... Removing libjson-java (3.1.0+dfsg-2) ... Removing junit4 (4.13.2-5) ... Removing default-jre-headless (2:1.21-76) ... Removing openjdk-21-jre-headless:amd64 (21.0.6~6ea-1) ... Removing ca-certificates-java (20240118) ... Removing ca-certificates (20241223) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libgenomicsdb-jni (1.5.4-4) ... Removing libgenomicsdb1 (1.5.4-4) ... Removing mpi-default-bin (1.18) ... Removing openmpi-bin (5.0.6-3) ... Removing libopenmpi40:amd64 (5.0.6-3) ... Removing libucx0:amd64 (1.17.0+ds-3) ... Removing libfabric1:amd64 (1.17.0-3.1) ... Removing ibverbs-providers:amd64 (52.0-2+b1) ... Removing java-common (0.76) ... Removing libamdhip64-5 (5.7.1-5) ... Removing libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Removing libcommons-beanutils-java (1.9.4-2) ... Removing libcommons-jexl2-java (2.1.1-6) ... Removing libcommons-lang3-java (3.17.0-1) ... Removing libprotobuf-java (3.21.12-10) ... Removing libatomic1:amd64 (14.2.0-11) ... Removing libcurl4t64:amd64 (8.11.1-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing openssh-client (1:9.9p1-3) ... Removing libfido2-1:amd64 (1.15.0-1+b1) ... Removing libcbor0.10:amd64 (0.10.2-2) ... Removing libcbor0.8:amd64 (0.8.0-2+b1) ... Removing libcommons-compress-java (1.27.1-2) ... Removing liblog4j2-java (2.19.0-2) ... Removing liblightcouch-java (0.2.0-1) ... Removing libhttpclient-java (4.5.14-1) ... Removing libcommons-codec-java (1.17.1-1) ... Removing libcommons-collections3-java (3.2.2-3) ... Removing libcommons-collections4-java (4.4-2) ... Removing libcommons-io-java (2.17.0-1) ... Removing libhsa-runtime64-1:amd64 (6.1.2-2) ... Removing libhsakmt1:amd64 (6.1.2+ds-1) ... Removing libdrm-amdgpu1:amd64 (2.4.123-1) ... Removing libdrm2:amd64 (2.4.123-1) ... Removing libdrm-common (2.4.123-1) ... Removing libllvm17t64:amd64 (1:17.0.6-19) ... Removing libedit2:amd64 (3.1-20240808-1) ... Removing libelf1t64:amd64 (0.192-4) ... Removing libpmix2t64:amd64 (5.0.5-1) ... Removing libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Removing libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Removing libezmorph-java (1.0.6-4) ... Removing libfmt10:amd64 (10.1.1+ds1-4) ... Removing libfmt9:amd64 (9.1.0+ds1-2) ... Removing libgetopt-java (1.0.14+dfsg-6) ... Removing libgomp1:amd64 (14.2.0-11) ... Removing libgoogle-gson-java (2.10.1-1) ... Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libhamcrest-java (2.2-2) ... Removing libhttpcore-java (4.4.16-1) ... Removing libhwloc-plugins:amd64 (2.11.2-1) ... Removing libhwloc15:amd64 (2.11.2-1) ... Removing libibmad5:amd64 (52.0-2+b1) ... Removing libibumad3:amd64 (52.0-2+b1) ... Removing librdmacm1t64:amd64 (52.0-2+b1) ... Removing libibverbs1:amd64 (52.0-2+b1) ... Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Removing libicu72:amd64 (72.1-5+b1) ... Removing libxom-java (1.3.9-1) ... Removing libjaxen-java (1.1.6-5) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing libjson-simple-java (2.3.0-1) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-4) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing libldap-2.5-0:amd64 (2.5.19+dfsg-1) ... Removing libngs-java:amd64 (3.0.9+dfsg-7+b1) ... Removing libngs-jni:amd64 (3.0.9+dfsg-7+b1) ... Removing libncbi-ngs3:amd64 (3.0.9+dfsg-7+b1) ... Removing libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Removing libmbedtls21:amd64 (3.6.2-3) ... Removing libmbedx509-7:amd64 (3.6.2-3) ... Removing libmbedcrypto16:amd64 (3.6.2-3) ... Removing libmbedtls14:amd64 (2.28.3-1) ... Removing libmbedx509-1:amd64 (2.28.3-1) ... Removing libmbedcrypto7:amd64 (2.28.3-1) ... Removing libmjson-java (1.4.0-3) ... Removing libmongodb-java (3.6.3-2) ... Removing libmunge2:amd64 (0.5.15-4+b1) ... Removing libmuparserx4.0.11:amd64 (4.0.11-2) ... Removing libmuparserx4.0.12:amd64 (4.0.12-2) ... Removing libnghttp2-14:amd64 (1.64.0-1) ... Removing libnl-route-3-200:amd64 (3.7.0-0.3+b1) ... Removing libnl-3-200:amd64 (3.7.0-0.3+b1) ... Removing libnss3:amd64 (2:3.106-1) ... Removing libnspr4:amd64 (2:4.36-1) ... Removing libpsm2-2 (11.2.185-2.1) ... Removing libnuma1:amd64 (2.0.18-1+b1) ... Removing libpciaccess0:amd64 (0.17-3+b2) ... Removing libpcsclite1:amd64 (2.3.1-1) ... Removing libprotobuf-java-format-java (1.3-1.1) ... Removing libprotobuf32t64:amd64 (3.21.12-10+b1) ... Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ... Removing libpsm-infinipath1 (3.3+20.604758e7-6.3) ... update-alternatives: warning: alternative /usr/lib/libpsm1/libpsm_infinipath.so.1.16 (part of link group libpsm_infinipath.so.1) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/libpsm_infinipath.so.1 is dangling; it will be updated with best choice Removing librhino-java (1.7.15-1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Removing libslf4j-java (1.7.32-1) ... Removing libsnappy-java (1.1.10.7-1) ... Removing libsnappy-jni (1.1.10.7-1) ... Removing libsnappy1v5:amd64 (1.2.1-1+b1) ... Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libssh2-1t64:amd64 (1.11.1-1) ... Removing libxnvctrl0:amd64 (535.171.04-1+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b2) ... Removing libx11-6:amd64 (2:1.8.10-2) ... Removing libx11-data (2:1.8.10-2) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.5-1) ... 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 libz3-4:amd64 (4.13.3-1) ... Removing ncbi-vdb-data (3.0.9+dfsg-2) ... Removing ocl-icd-libopencl1:amd64 (2.3.2-1+b2) ... Removing openmpi-common (5.0.6-3) ... Removing openssl (3.3.2-2) ... Removing libcommons-logging-java (1.3.0-1) ... 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+ds1-5) ... Removing libjsr305-java (0.1~+svn49-11) ... Processing triggers for libc-bin (2.40-4) ... 0m33.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'remove', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libatomic1:amd64', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libcbor0.8: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', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfmt9: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', 'libicu72: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', 'libldap-2.5-0:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.11:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf-java-format-java', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libucx0: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:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl', 'libgenomicsdb-java'] 0m33.4s INFO: Running scripts post_remove 0m33.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_remove_exceptions'] 0m33.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_remove_exceptions'] 0m33.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libatomic1:amd64', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libcbor0.8: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', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfmt9: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', 'libicu72: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', 'libldap-2.5-0:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.11:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf-java-format-java', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libucx0: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:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl'] 0m33.5s DUMP: (Reading database ... 5367 files and directories currently installed.) Purging configuration files for ca-certificates (20241223) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20240118) ... dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for ibverbs-providers:amd64 (52.0-2+b1) ... Purging configuration files for java-common (0.76) ... dpkg: warning: ignoring request to remove junit4 which isn't installed dpkg: warning: ignoring request to remove libamd-comgr2 which isn't installed dpkg: warning: ignoring request to remove libamdhip64-5 which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed dpkg: warning: ignoring request to remove libatinject-jsr330-api-java which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcbor0.10 which isn't installed dpkg: warning: ignoring request to remove libcbor0.8 which isn't installed dpkg: warning: ignoring request to remove libcommons-beanutils-java which isn't installed dpkg: warning: ignoring request to remove libcommons-codec-java which isn't installed dpkg: warning: ignoring request to remove libcommons-collections3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-collections4-java which isn't installed dpkg: warning: ignoring request to remove libcommons-compress-java which isn't installed dpkg: warning: ignoring request to remove libcommons-io-java which isn't installed dpkg: warning: ignoring request to remove libcommons-jexl2-java which isn't installed dpkg: warning: ignoring request to remove libcommons-lang3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-logging-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libelf1t64 which isn't installed dpkg: warning: ignoring request to remove liberror-prone-java which isn't installed dpkg: warning: ignoring request to remove libevent-core-2.1-7t64 which isn't installed dpkg: warning: ignoring request to remove libevent-pthreads-2.1-7t64 which isn't installed dpkg: warning: ignoring request to remove libezmorph-java which isn't installed dpkg: warning: ignoring request to remove libfabric1 which isn't installed dpkg: warning: ignoring request to remove libfido2-1 which isn't installed dpkg: warning: ignoring request to remove libfmt10 which isn't installed dpkg: warning: ignoring request to remove libfmt9 which isn't installed dpkg: warning: ignoring request to remove libgenomicsdb-jni which isn't installed dpkg: warning: ignoring request to remove libgenomicsdb1 which isn't installed dpkg: warning: ignoring request to remove libgetopt-java which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgoogle-gson-java which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libguava-java which isn't installed dpkg: warning: ignoring request to remove libhamcrest-java which isn't installed dpkg: warning: ignoring request to remove libhsa-runtime64-1 which isn't installed dpkg: warning: ignoring request to remove libhsakmt1 which isn't installed dpkg: warning: ignoring request to remove libhtsjdk-java which isn't installed dpkg: warning: ignoring request to remove libhttpclient-java which isn't installed dpkg: warning: ignoring request to remove libhttpcore-java which isn't installed dpkg: warning: ignoring request to remove libhwloc-plugins which isn't installed dpkg: warning: ignoring request to remove libhwloc15 which isn't installed dpkg: warning: ignoring request to remove libibmad5 which isn't installed dpkg: warning: ignoring request to remove libibumad3 which isn't installed dpkg: warning: ignoring request to remove libibverbs1 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libjaxen-java which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjson-java which isn't installed dpkg: warning: ignoring request to remove libjson-simple-java which isn't installed dpkg: warning: ignoring request to remove libjsr305-java which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblightcouch-java which isn't installed dpkg: warning: ignoring request to remove libllvm17t64 which isn't installed dpkg: warning: ignoring request to remove liblog4j2-java which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto16 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedtls21 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-7 which isn't installed dpkg: warning: ignoring request to remove libmjson-java which isn't installed dpkg: warning: ignoring request to remove libmongodb-java which isn't installed dpkg: warning: ignoring request to remove libmunge2 which isn't installed dpkg: warning: ignoring request to remove libmuparserx4.0.11 which isn't installed dpkg: warning: ignoring request to remove libmuparserx4.0.12 which isn't installed dpkg: warning: ignoring request to remove libncbi-ngs3 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb3 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libngs-java which isn't installed dpkg: warning: ignoring request to remove libngs-jni which isn't installed Purging configuration files for libnl-3-200:amd64 (3.7.0-0.3+b1) ... dpkg: warning: ignoring request to remove libnl-route-3-200 which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libnuma1 which isn't installed dpkg: warning: ignoring request to remove libopenmpi40 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libpmix2t64 which isn't installed dpkg: warning: ignoring request to remove libprotobuf-java which isn't installed dpkg: warning: ignoring request to remove libprotobuf-java-format-java which isn't installed dpkg: warning: ignoring request to remove libprotobuf32t64 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed Purging configuration files for libpsm-infinipath1 (3.3+20.604758e7-6.3) ... dpkg: warning: ignoring request to remove libpsm2-2 which isn't installed dpkg: warning: ignoring request to remove librdmacm1t64 which isn't installed dpkg: warning: ignoring request to remove librhino-java which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libslf4j-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-java which isn't installed dpkg: warning: ignoring request to remove libsnappy-jni which isn't installed dpkg: warning: ignoring request to remove libsnappy1v5 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libucx0 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxerces2-java which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxml-commons-external-java which isn't installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-11) ... dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxnvctrl0 which isn't installed dpkg: warning: ignoring request to remove libxom-java which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed dpkg: warning: ignoring request to remove mpi-default-bin which isn't installed dpkg: warning: ignoring request to remove ncbi-vdb-data which isn't installed dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed Purging configuration files for openjdk-21-jre-headless:amd64 (21.0.6~6ea-1) ... Purging configuration files for openmpi-bin (5.0.6-3) ... dpkg: warning: ignoring request to remove openmpi-common which isn't installed Purging configuration files for openssh-client (1:9.9p1-3) ... warn: The group `ssh' does not exist. Purging configuration files for openssl (3.3.2-2) ... 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', 'ca-certificates', 'ca-certificates-java', 'default-jre-headless', 'ibverbs-providers:amd64', 'java-common', 'junit4', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libapache-pom-java', 'libatinject-jsr330-api-java', 'libatomic1:amd64', 'libbrotli1:amd64', 'libcbor0.10:amd64', 'libcbor0.8: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', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libezmorph-java', 'libfabric1:amd64', 'libfido2-1:amd64', 'libfmt10:amd64', 'libfmt9: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', 'libicu72: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', 'libldap-2.5-0:amd64', 'liblightcouch-java', 'libllvm17t64:amd64', 'liblog4j2-java', 'libmbedcrypto16:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedtls21:amd64', 'libmbedx509-1:amd64', 'libmbedx509-7:amd64', 'libmjson-java', 'libmongodb-java', 'libmunge2:amd64', 'libmuparserx4.0.11:amd64', 'libmuparserx4.0.12:amd64', 'libncbi-ngs3:amd64', 'libncbi-vdb3:amd64', 'libnghttp2-14:amd64', 'libngs-java:amd64', 'libngs-jni:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libnuma1:amd64', 'libopenmpi40:amd64', 'libpciaccess0:amd64', 'libpcsclite1:amd64', 'libpmix2t64:amd64', 'libprotobuf-java', 'libprotobuf-java-format-java', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'librdmacm1t64:amd64', 'librhino-java', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libslf4j-java', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libucx0: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:amd64', 'libxnvctrl0:amd64', 'libxom-java', 'libz3-4:amd64', 'mpi-default-bin', 'ncbi-vdb-data', 'ocl-icd-libopencl1:amd64', 'openjdk-21-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'openssl'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', 'libgenomicsdb-java'] 0m33.5s DUMP: dpkg: warning: ignoring request to remove libgenomicsdb-java which isn't installed 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', 'libgenomicsdb-java'] 0m33.5s INFO: Running scripts post_purge 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_purge_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_purge_exceptions'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', '--pending'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--purge', '--pending'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--remove', '--pending'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg', '--remove', '--pending'] 0m33.5s INFO: Running scripts post_test 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_test_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'tmp/scripts/post_test_exceptions'] 0m33.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m33.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m33.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-divert', '--list'] 0m33.7s DUMP: diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra 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 /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra 0m33.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'dpkg-divert', '--list'] 0m33.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'clean'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0', 'apt-get', 'clean'] 0m33.8s DEBUG: Recording chroot state 0m34.1s INFO: Warning: Package purging left files on system: /var/cache/debconf/tmp.ci/ not owned 0m34.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/shm'] 0m34.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/shm'] 0m34.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/console'] 0m34.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/console'] 0m34.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/ptmx'] 0m34.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/ptmx'] 0m34.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts'] 0m34.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/dev/pts'] 0m34.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/proc'] 0m34.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0/proc'] 0m34.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m34.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp5ngmsbn0'] 0m34.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp5ngmsbn0 0m34.5s INFO: PASS: Upgrading between Debian distributions. 0m34.5s INFO: PASS: All tests. 0m34.5s INFO: piuparts run ends. ret=0 End: 2024-12-30 16:57:32 GMT