Start: 2024-11-03 10:05:25 GMT [stable] Package: gromacs Version: 2022.5-2 Installed-Size: 727 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2022.5-2), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs7 (>= 2022.5), libopenmpi3 (>= 4.1.4), libstdc++6 (>= 11), libx11-6 Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description: Molecular dynamics simulator, with building and analysis tools Homepage: https://www.gromacs.org/ Description-md5: b2bae23de6e584a47799dd4899a2c30a Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2022.5-2_amd64.deb Size: 140492 MD5sum: 5fd9156a80cb62b986ad17fd7bd906d7 SHA256: abbd33c546080a5405e153e9d5064ff557b6566fffea83885ade6d44f29fc1a0 [testing] Package: gromacs Version: 2024.3-2 Installed-Size: 461 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2024.3-2), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs9 (>= 2024.3), libopenmpi3t64 (>= 4.1.6), libstdc++6 (>= 11) Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description: Molecular dynamics simulator, with building and analysis tools Homepage: https://www.gromacs.org/ Description-md5: b2bae23de6e584a47799dd4899a2c30a Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2024.3-2_amd64.deb Size: 61304 MD5sum: e2f342452fe1dae77a74f01c90ad3529 SHA256: b412778271f2c36f86334548fa341e6e497628e1e0edac23d7dbcad9b0093b41 [sid] Package: gromacs Version: 2024.4-1 Installed-Size: 453 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2024.4-1), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs9 (>= 2024.4), libopenmpi3t64 (>= 5.0.5), libstdc++6 (>= 11) Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description: Molecular dynamics simulator, with building and analysis tools Homepage: https://www.gromacs.org/ Description-md5: b2bae23de6e584a47799dd4899a2c30a Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2024.4-1_amd64.deb Size: 63964 MD5sum: 89bac3312828940a114623f8c25ed43c SHA256: 4d68013dd7f1b692e45e2b9864825c44a87a5604ced535a856795b9938d2edf5 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 gromacs=2024.4-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-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 gromacs=2024.4-1 0m0.0s INFO: Running on: Linux piu-slave-conova-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/tmp4v_9g17h 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp4v_9g17h 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp4v_9g17h/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 0m1.7s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 0m2.2s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 14b5c1b94e8a6c425b0bba0e4df4ee12 - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_dummy_users'] 0m3.5s 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 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_dummy_users'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.6s 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+deb12u7 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.30-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.30-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.6s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m3.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m4.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m4.1s INFO: Running scripts is_testable 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s INFO: Running scripts pre_test 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_test_root_password'] 0m4.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_test_root_password'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 0m4.4s DUMP: Package: gromacs Version: 2022.5-2 Installed-Size: 727 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2022.5-2), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs7 (>= 2022.5), libopenmpi3 (>= 4.1.4), libstdc++6 (>= 11), libx11-6 Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description-en: Molecular dynamics simulator, with building and analysis tools GROMACS is a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles. . It is primarily designed for biochemical molecules like proteins and lipids that have a lot of complicated bonded interactions, but since GROMACS is extremely fast at calculating the nonbonded interactions (that usually dominate simulations) many groups are also using it for research on non- biological systems, e.g. polymers. . This package contains variants both for execution on a single machine, and using the MPI interface across multiple machines. Description-md5: b2bae23de6e584a47799dd4899a2c30a Homepage: https://www.gromacs.org/ Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2022.5-2_amd64.deb Size: 140492 MD5sum: 5fd9156a80cb62b986ad17fd7bd906d7 SHA256: abbd33c546080a5405e153e9d5064ff557b6566fffea83885ade6d44f29fc1a0 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 0m4.4s INFO: apt-cache knows about the following packages: gromacs 0m4.4s INFO: Running scripts pre_install 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 0m4.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.7,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 0m4.6s DUMP: gromacs: Installed: (none) Candidate: 2022.5-2 Version table: 2022.5-2 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 0m16.5s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: fonts-mathjax gromacs-data ibverbs-providers isa-support libatomic1 libblas3 libbsd0 libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfftw3-double3 libfftw3-single3 libgfortran5 libgomp1 libgromacs7 libhwloc-plugins libhwloc15 libibverbs1 libicu72 libjs-mathjax liblapack3 libmunge2 libmuparser2v5 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2 libpsm-infinipath1 libpsm2-2 libquadmath0 librdmacm1 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 ocl-icd-libopencl1 sse4.2-support Suggested packages: pymol libfftw3-bin libfftw3-dev libhwloc-contrib-plugins fonts-mathjax-extras fonts-stix libjs-mathjax-doc pciutils opencl-icd Recommended packages: cpp mpi-default-bin The following NEW packages will be installed: fonts-mathjax gromacs gromacs-data ibverbs-providers isa-support libatomic1 libblas3 libbsd0 libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfftw3-double3 libfftw3-single3 libgfortran5 libgomp1 libgromacs7 libhwloc-plugins libhwloc15 libibverbs1 libicu72 libjs-mathjax liblapack3 libmunge2 libmuparser2v5 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi3 libpciaccess0 libpmix2 libpsm-infinipath1 libpsm2-2 libquadmath0 librdmacm1 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 ocl-icd-libopencl1 sse4.2-support 0 upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 97.2 MB of archives. After this operation, 457 MB of additional disk space will be used. 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Unpacking gromacs (2022.5-2) ... Setting up libpciaccess0:amd64 (0.17-2) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up fonts-mathjax (2.7.9+dfsg-1) ... Setting up libicu72:amd64 (72.1-3) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libmunge2 (0.5.15-2) ... Setting up libx11-data (2:1.8.4-2+deb12u2) ... Setting up libquadmath0:amd64 (12.2.0-14) ... Setting up libhwloc15:amd64 (2.9.0-1) ... Setting up libevent-core-2.1-7:amd64 (2.1.12-stable-8) ... Setting up libatomic1:amd64 (12.2.0-14) ... Setting up libfftw3-double3:amd64 (3.3.10-1) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up libnuma1:amd64 (2.0.16-1) ... Setting up ocl-icd-libopencl1:amd64 (2.3.1-1) ... Setting up sse4.2-support (15.1) ... Setting up libnl-3-200:amd64 (3.7.0-0.2+b1) ... Setting up libpsm2-2 (11.2.185-2) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.2) ... 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 libmuparser2v5:amd64 (2.3.3-0.1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libevent-pthreads-2.1-7:amd64 (2.1.12-stable-8) ... Setting up gromacs-data (2022.5-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up libfftw3-single3:amd64 (3.3.10-1) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.2+b1) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Setting up libibverbs1:amd64 (44.0-2) ... Setting up ibverbs-providers:amd64 (44.0-2) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libxnvctrl0:amd64 (525.85.05-3~deb12u1) ... Setting up librdmacm1:amd64 (44.0-2) ... Setting up libucx0:amd64 (1.13.1-1) ... 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 libgromacs7:amd64 (2022.5-2) ... Setting up gromacs (2022.5-2) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 0m16.5s INFO: Running scripts post_install 0m16.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 0m16.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 0m16.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m18.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m18.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp4v_9g17h to testing 0m18.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m18.4s INFO: Running scripts pre_distupgrade 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_exceptions'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 0m22.1s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9329 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6240 kB] Fetched 15.7 MB in 3s (5986 kB/s) Reading package lists... 0m22.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 0m22.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 0m51.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgromacs7 libquadmath0 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 libgnutls30 libhogweed6 libnettle8 libopenmpi3 libpmix2 librdmacm1 The following NEW packages will be installed: gcc-14-base libamd-comgr2 libamdhip64-5 libapt-pkg6.0t64 libdb5.3t64 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libext2fs2t64 libgnutls30t64 libgromacs9 libhogweed6t64 libhsa-runtime64-1 libhsakmt1 libibmad5 libibumad3 libllvm17t64 libnettle8t64 libopenmpi3t64 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 gromacs gromacs-data gzip hostname ibverbs-providers init-system-helpers isa-support libacl1 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libbsd0 libbz2-1.0 libc-bin libc6 libcap-ng0 libcap2 libcom-err2 libcrypt1 libdebconfclient0 libfabric1 libffi8 libfftw3-double3 libfftw3-single3 libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libhwloc-plugins libhwloc15 libibverbs1 libicu72 libidn2-0 liblapack3 liblz4-1 liblzma5 libmd0 libmount1 libmunge2 libmuparser2v5 libnl-3-200 libnl-route-3-200 libnuma1 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpciaccess0 libpcre2-8-0 libpsm-infinipath1 libpsm2-2 libquadmath0 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 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 ncurses-base ncurses-bin ocl-icd-libopencl1 passwd perl-base sed sse4.2-support sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra zlib1g 118 upgraded, 30 newly installed, 11 to remove and 0 not upgraded. Need to get 188 MB of archives. After this operation, 404 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.40-3 [2807 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.40-3 [627 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-6 [46.7 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-6 [72.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.20 [89.5 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.32-1+b2 [1500 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 256.7-2 [382 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-9 [105 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b2 [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 libssl3t64 amd64 3.3.2-2 [2271 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 openssl-provider-legacy amd64 3.3.2-2 [298 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1+b1 [88.9 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.5-1+b1 [2922 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.50-4 [81.6 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-6 [715 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10-1+b1 [305 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10-1+b1 [335 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-2+b1 [429 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.2-1+b1 [429 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.6-2+b1 [1446 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.19.0-3+b3 [49.5 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.2-2+b2 [26.6 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.9.4-3+b1 [60.3 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.6.3-1+b1 [272 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 256.7-2 [145 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.10 [1045 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.10 [1413 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.25 [11.0 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-9 [704 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:3.1.2-4 [11.5 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-3 [17.2 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:3.1.2-4+b1 [49.0 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.40.0-6 [1675 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.87 [119 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.5.3-7+b1 [68.3 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.42-4+b2 [266 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.7-3 [76.9 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.5.3-7+b1 [54.1 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.5.3-7+b1 [267 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.40.2-9 [81.4 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5-2+b1 [344 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5-2+b1 [434 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-9 [168 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-9 [199 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-9 [139 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-9 [35.6 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-9 [1216 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.40.2-9 [265 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.272+b1 [10.3 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.5 [53.1 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2+b1 [32.9 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-2 [22.7 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2+b1 [36.3 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-2 [131 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.7-2 [7108 B] Get:74 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.7-2 [91.3 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.44-1 [218 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-1+b2 [47.4 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 usr-is-merged all 39 [5572 B] Get:82 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.67 [38.7 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5-2 [270 kB] Get:84 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.11-1 [33.1 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libnl-route-3-200 amd64 3.7.0-0.3+b1 [182 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libnl-3-200 amd64 3.7.0-0.3+b1 [59.4 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 libibverbs1 amd64 52.0-2+b1 [62.2 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 ibverbs-providers amd64 52.0-2+b1 [343 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.8.12-3.1+b3 [7772 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 libllvm17t64 amd64 1:17.0.6-18 [23.6 MB] Get:94 http://deb.debian.org/debian trixie/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get:95 http://deb.debian.org/debian trixie/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get:96 http://deb.debian.org/debian trixie/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 libnuma1 amd64 2.0.18-1+b1 [22.3 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 libhsakmt1 amd64 5.7.0-1 [60.7 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libhsa-runtime64-1 amd64 5.7.1-3 [510 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libamdhip64-5 amd64 5.7.1-5 [8877 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-6 [137 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 libibumad3 amd64 52.0-2+b1 [28.2 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 libibmad5 amd64 52.0-2+b1 [43.4 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-6 [9284 B] Get:107 http://deb.debian.org/debian trixie/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3 [170 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 libfabric1 amd64 1.17.0-3.1 [631 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 librdmacm1t64 amd64 52.0-2+b1 [70.4 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 libucx0 amd64 1.17.0+ds-3 [1130 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 libopenmpi3t64 amd64 4.1.6-13.3 [2426 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 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 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b2 [18.2 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b2 [24.4 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b2 [804 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 libxnvctrl0 amd64 535.171.04-1+b1 [14.2 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 ocl-icd-libopencl1 amd64 2.3.2-1+b2 [40.2 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 libhwloc15 amd64 2.11.2-1 [164 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 libhwloc-plugins amd64 2.11.2-1 [18.1 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 libmunge2 amd64 0.5.15-4+b1 [20.0 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 libpmix2t64 amd64 5.0.3-2+b1 [662 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.1-1+b1 [23.0 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.1-1+b1 [211 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.1-1+b1 [585 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-9 [154 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 isa-support amd64 24 [14.4 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 sse4.2-support amd64 24 [3496 B] Get:134 http://deb.debian.org/debian trixie/main amd64 mawk amd64 1.3.4.20240905-1 [138 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 libquadmath0 amd64 14.2.0-6 [145 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-6 [836 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 gromacs amd64 2024.3-2 [61.3 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 gromacs-data all 2024.3-2 [43.4 MB] Get:141 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3+b1 [152 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 libfftw3-double3 amd64 3.3.10-1+b3 [780 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 libfftw3-single3 amd64 3.3.10-1+b3 [806 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3+b1 [2450 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 libmuparser2v5 amd64 2.3.4-1+b1 [149 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 libgromacs9 amd64 2024.3-2 [32.0 MB] Get:147 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 libss2 amd64 1.47.1-1+b1 [27.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 188 MB in 1s (143 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34392 files and directories currently installed.) Preparing to unpack .../base-files_13.5_amd64.deb ... Unpacking base-files (13.5) over (12.4+deb12u7) ... Setting up base-files (13.5) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Updating /etc/profile to current default. (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 ... 34403 files and directories currently installed.) Preparing to unpack .../libc6_2.40-3_amd64.deb ... Unpacking libc6:amd64 (2.40-3) over (2.36-9+deb12u8) ... Setting up libc6:amd64 (2.40-3) ... (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 ... 34405 files and directories currently installed.) Preparing to unpack .../libc-bin_2.40-3_amd64.deb ... Unpacking libc-bin (2.40-3) over (2.36-9+deb12u8) ... Setting up libc-bin (2.40-3) ... Selecting previously unselected package gcc-14-base:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34405 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-6_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-6) ... Setting up gcc-14-base:amd64 (14.2.0-6) ... (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 ... 34410 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-6_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-6) over (12.2.0-14) ... Setting up libgcc-s1:amd64 (14.2.0-6) ... (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 ... 34410 files and directories currently installed.) Preparing to unpack .../debianutils_5.20_amd64.deb ... Unpacking debianutils (5.20) over (5.7-0.5~deb12u1) ... Setting up debianutils (5.20) ... (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 ... 34409 files and directories currently installed.) Preparing to unpack .../bash_5.2.32-1+b2_amd64.deb ... Unpacking bash (5.2.32-1+b2) over (5.2.15-2+b7) ... Setting up bash (5.2.32-1+b2) ... Installing new version of config file /etc/bash.bashrc ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (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 ... 34409 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.66-5+b1_amd64.deb ... Unpacking libcap2:amd64 (1:2.66-5+b1) over (1:2.66-4) ... Setting up libcap2:amd64 (1:2.66-5+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 ... 34410 files and directories currently installed.) Preparing to unpack .../libsystemd0_256.7-2_amd64.deb ... Unpacking libsystemd0:amd64 (256.7-2) over (252.30-1~deb12u2) ... Setting up libsystemd0:amd64 (256.7-2) ... (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 ... 34410 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.2-9_amd64.deb ... Unpacking bsdutils (1:2.40.2-9) over (1:2.38.1-5+deb12u1) ... Setting up bsdutils (1:2.40.2-9) ... (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 ... 34411 files and directories currently installed.) Preparing to unpack .../libgmp10_2%3a6.3.0+dfsg-2+b2_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-2+b2) over (2:6.2.1+dfsg1-1.1) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-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 ... 34412 files and directories currently installed.) Preparing to unpack .../libzstd1_1.5.6+dfsg-1+b1_amd64.deb ... Unpacking libzstd1:amd64 (1.5.6+dfsg-1+b1) over (1.5.4+dfsg2-5) ... Setting up libzstd1:amd64 (1.5.6+dfsg-1+b1) ... Selecting previously unselected package libssl3t64: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 ... 34413 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.3.2-2_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.2-2) ... Selecting previously unselected package openssl-provider-legacy. Preparing to unpack .../openssl-provider-legacy_3.3.2-2_amd64.deb ... Unpacking openssl-provider-legacy (3.3.2-2) ... Setting up openssl-provider-legacy (3.3.2-2) ... Setting up libssl3t64:amd64 (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 ... 34432 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 ... 34433 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 ... 34439 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 ... 34436 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 ... 34438 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.50-4_amd64.deb ... Unpacking libgpg-error0:amd64 (1.50-4) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.50-4) ... (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 ... 34438 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 ... 34438 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-6_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-6) over (12.2.0-14) ... Setting up libstdc++6:amd64 (14.2.0-6) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 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 ... 34438 files and directories currently installed.) Removing libnettle8:amd64 (3.8.1-2) ... 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 ... 34430 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: 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 ... 34440 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 ... 34434 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 ... 34442 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-2+b1_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-2+b1) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.5-2+b1) ... 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 ... 34443 files and directories currently installed.) Preparing to unpack .../libunistring5_1.2-1+b1_amd64.deb ... Unpacking libunistring5:amd64 (1.2-1+b1) ... Setting up libunistring5:amd64 (1.2-1+b1) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: 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 ... 34450 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 ... 34421 files and directories currently installed.) Preparing to unpack .../libgnutls30t64_3.8.6-2+b1_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.6-2+b1) ... Setting up libgnutls30t64:amd64 (3.8.6-2+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 ... 34451 files and directories currently installed.) 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 ... 34451 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 ... 34452 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 ... 34453 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 ... 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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 ... 34453 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 ... 34454 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 ... 34455 files and directories currently installed.) Preparing to unpack .../libudev1_256.7-2_amd64.deb ... Unpacking libudev1:amd64 (256.7-2) over (252.30-1~deb12u2) ... Setting up libudev1:amd64 (256.7-2) ... 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 ... 34455 files and directories currently installed.) Removing libapt-pkg6.0:amd64 (2.6.1) ... 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 ... 34406 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.10_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.10) ... Setting up libapt-pkg6.0t64:amd64 (2.9.10) ... (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 ... 34456 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.10_amd64.deb ... Unpacking apt (2.9.10) over (2.6.1) ... Setting up apt (2.9.10) ... (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 ... 34452 files and directories currently installed.) Preparing to unpack .../tar_1.35+dfsg-3_amd64.deb ... Unpacking tar (1.35+dfsg-3) over (1.34+dfsg-1.2+deb12u1) ... Setting up tar (1.35+dfsg-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34453 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 ... 34440 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 ... 34438 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 ... 34438 files and directories currently installed.) Preparing to unpack .../gzip_1.12-1.1_amd64.deb ... Unpacking gzip (1.12-1.1) 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 (1.12-1.1) ... (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 ... 34438 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) ... 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 ... 34438 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.16.0-4_all.deb ... Unpacking login.defs (1:4.16.0-4) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up login.defs (1:4.16.0-4) ... Installing new version of config file /etc/login.defs ... dpkg: libdb5.3:amd64: dependency problems, but removing anyway as you requested: libpam-modules:amd64 depends on libdb5.3. (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 ... 34443 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 ... 34437 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 ... (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 ... 34443 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a3.1.2-4_all.deb ... Unpacking libaudit-common (1:3.1.2-4) over (1:3.0.9-1) ... Setting up libaudit-common (1:3.1.2-4) ... (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 ... 34443 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-3_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-3) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.5-3) ... (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 ... 34442 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a3.1.2-4+b1_amd64.deb ... Unpacking libaudit1:amd64 (1:3.1.2-4+b1) over (1:3.0.9-1) ... Setting up libaudit1:amd64 (1:3.1.2-4+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34443 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.36-5) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.36-5) ... (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 ... 34443 files and directories currently installed.) Preparing to unpack .../perl-base_5.40.0-6_amd64.deb ... Unpacking perl-base (5.40.0-6) over (5.36.0-7+deb12u1) ... Setting up perl-base (5.40.0-6) ... (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 ... 34446 files and directories currently installed.) Preparing to unpack .../debconf_1.5.87_all.deb ... Unpacking debconf (1.5.87) over (1.5.82) ... Setting up debconf (1.5.87) ... Installing new version of config file /etc/debconf.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 ... 34445 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 ... (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 ... 34445 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.42-4+b2_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.42-4+b2) over (10.42-1) ... Setting up libpcre2-8-0:amd64 (10.42-4+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 ... 34446 files and directories currently installed.) Preparing to unpack .../libselinux1_3.7-3_amd64.deb ... Unpacking libselinux1:amd64 (3.7-3) over (3.4-1+b6) ... Setting up libselinux1:amd64 (3.7-3) ... (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 ... 34446 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-7+b1_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-7+b1) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.5.3-7+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 ... 34446 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 ... 34447 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 ... 34446 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-9_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-9) over (1:4.13+dfsg1-1+b1) ... Setting up login (1:4.16.0-2+really2.40.2-9) ... Installing new version of config file /etc/pam.d/login ... (Reading database ... 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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 (2.40.2-9) over (2.38.1-5+deb12u1) ... 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 (2.40.2-9) ... (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 ... 34358 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 ... 34357 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 ... 34357 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.7-2_amd64.deb ... Unpacking libsemanage2:amd64 (3.7-2) over (3.4-1+b5) ... Setting up libsemanage2:amd64 (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 ... 34356 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.16.0-4_amd64.deb ... Unpacking passwd (1:4.16.0-4) over (1:4.13+dfsg1-1+b1) ... Setting up passwd (1:4.16.0-4) ... (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 ... 34384 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 ... 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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 ... 34378 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2023.4_all.deb ... Unpacking debian-archive-keyring (2023.4) over (2023.3+deb12u1) ... Setting up debian-archive-keyring (2023.4) ... (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 ... 34378 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.5-1+b2_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.5-1+b2) over (2.5.4-1+deb12u1) ... Setting up libseccomp2:amd64 (2.5.5-1+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 ... 34379 files and directories currently installed.) Preparing to unpack .../usr-is-merged_39_all.deb ... Unpacking usr-is-merged (39) over (37~deb12u1) ... Setting up usr-is-merged (39) ... (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 ... 34379 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.67_all.deb ... Unpacking init-system-helpers (1.67) over (1.65.2) ... Setting up init-system-helpers (1.67) ... (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 ... 34379 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.5-2_all.deb ... Unpacking ncurses-base (6.5-2) over (6.4-4) ... Setting up ncurses-base (6.5-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34377 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.11-1_amd64.deb ... Unpacking sysvinit-utils (3.11-1) over (3.06-4) ... dpkg: warning: unable to delete old directory '/lib/lsb/init-functions.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/lsb': Directory not empty dpkg: warning: unable to delete old directory '/lib/init': Directory not empty Setting up sysvinit-utils (3.11-1) ... (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 ... 34377 files and directories currently installed.) Preparing to unpack .../00-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 .../01-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) ... Preparing to unpack .../02-libibverbs1_52.0-2+b1_amd64.deb ... Unpacking libibverbs1:amd64 (52.0-2+b1) over (44.0-2) ... Preparing to unpack .../03-ibverbs-providers_52.0-2+b1_amd64.deb ... Unpacking ibverbs-providers:amd64 (52.0-2+b1) over (44.0-2) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../04-libedit2_3.1-20240808-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20240808-1) ... Preparing to unpack .../05-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) over (72.1-3) ... Preparing to unpack .../06-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) over (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package libz3-4:amd64. Preparing to unpack .../07-libz3-4_4.8.12-3.1+b3_amd64.deb ... Unpacking libz3-4:amd64 (4.8.12-3.1+b3) ... Selecting previously unselected package libllvm17t64:amd64. Preparing to unpack .../08-libllvm17t64_1%3a17.0.6-18_amd64.deb ... Unpacking libllvm17t64:amd64 (1:17.0.6-18) ... Selecting previously unselected package libamd-comgr2:amd64. Preparing to unpack .../09-libamd-comgr2_6.0+git20231212.4510c28+dfsg-3+b2_amd64.deb ... Unpacking libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../10-libdrm-common_2.4.123-1_all.deb ... Unpacking libdrm-common (2.4.123-1) ... Selecting previously unselected package libdrm2:amd64. Preparing to unpack .../11-libdrm2_2.4.123-1_amd64.deb ... Unpacking libdrm2:amd64 (2.4.123-1) ... Selecting previously unselected package libdrm-amdgpu1:amd64. Preparing to unpack .../12-libdrm-amdgpu1_2.4.123-1_amd64.deb ... Unpacking libdrm-amdgpu1:amd64 (2.4.123-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../13-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Preparing to unpack .../14-libnuma1_2.0.18-1+b1_amd64.deb ... Unpacking libnuma1:amd64 (2.0.18-1+b1) over (2.0.16-1) ... Selecting previously unselected package libhsakmt1:amd64. Preparing to unpack .../15-libhsakmt1_5.7.0-1_amd64.deb ... Unpacking libhsakmt1:amd64 (5.7.0-1) ... Selecting previously unselected package libhsa-runtime64-1:amd64. Preparing to unpack .../16-libhsa-runtime64-1_5.7.1-3_amd64.deb ... Unpacking libhsa-runtime64-1:amd64 (5.7.1-3) ... Selecting previously unselected package libamdhip64-5. Preparing to unpack .../17-libamdhip64-5_5.7.1-5_amd64.deb ... Unpacking libamdhip64-5 (5.7.1-5) ... Preparing to unpack .../18-libgomp1_14.2.0-6_amd64.deb ... Unpacking libgomp1:amd64 (14.2.0-6) over (12.2.0-14) ... Selecting previously unselected package libibumad3:amd64. Preparing to unpack .../19-libibumad3_52.0-2+b1_amd64.deb ... Unpacking libibumad3:amd64 (52.0-2+b1) ... Selecting previously unselected package libibmad5:amd64. Preparing to unpack .../20-libibmad5_52.0-2+b1_amd64.deb ... Unpacking libibmad5:amd64 (52.0-2+b1) ... Preparing to unpack .../21-libatomic1_14.2.0-6_amd64.deb ... 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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 ... 34474 files and directories currently installed.) Removing libpmix2:amd64 (4.2.2-1+deb12u1) ... Removing libevent-pthreads-2.1-7:amd64 (2.1.12-stable-8) ... Removing libevent-core-2.1-7:amd64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-core-2.1-7t64:amd64. (Reading database ... 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Preparing to unpack .../02-libpciaccess0_0.17-3+b2_amd64.deb ... Unpacking libpciaccess0:amd64 (0.17-3+b2) over (0.17-2) ... Preparing to unpack .../03-libxau6_1%3a1.0.9-1+b2_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1+b2) over (1:1.0.9-1) ... Preparing to unpack .../04-libxdmcp6_1%3a1.1.2-3+b2_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3+b2) over (1:1.1.2-3) ... Preparing to unpack .../05-libxcb1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2+b1) over (1.15-1) ... Preparing to unpack .../06-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) over (2:1.8.4-2+deb12u2) ... Preparing to unpack .../07-libx11-6_2%3a1.8.7-1+b2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.7-1+b2) over (2:1.8.4-2+deb12u2) ... Preparing to unpack .../08-libxext6_2%3a1.3.4-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b2) over (2:1.3.4-1+b1) ... Preparing to unpack .../09-libxnvctrl0_535.171.04-1+b1_amd64.deb ... Unpacking libxnvctrl0:amd64 (535.171.04-1+b1) over (525.85.05-3~deb12u1) ... Preparing to unpack .../10-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 .../11-libhwloc15_2.11.2-1_amd64.deb ... Unpacking libhwloc15:amd64 (2.11.2-1) over (2.9.0-1) ... Preparing to unpack .../12-libhwloc-plugins_2.11.2-1_amd64.deb ... Unpacking libhwloc-plugins:amd64 (2.11.2-1) over (2.9.0-1) ... Preparing to unpack .../13-libmunge2_0.5.15-4+b1_amd64.deb ... Unpacking libmunge2:amd64 (0.5.15-4+b1) over (0.5.15-2) ... Selecting previously unselected package libpmix2t64:amd64. Preparing to unpack .../14-libpmix2t64_5.0.3-2+b1_amd64.deb ... Unpacking libpmix2t64:amd64 (5.0.3-2+b1) ... Preparing to unpack .../15-logsave_1.47.1-1+b1_amd64.deb ... Unpacking logsave (1.47.1-1+b1) over (1.47.0-2) ... dpkg: libext2fs2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libext2fs2 (= 1.47.0-2). (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 ... 34492 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2) ... Selecting previously unselected package libext2fs2t64: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 (1.47.1-1+b1) ... Setting up libext2fs2t64:amd64 (1.47.1-1+b1) ... (Reading database ... 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Unpacking e2fsprogs (1.47.1-1+b1) 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 .../mount_2.40.2-9_amd64.deb ... Unpacking mount (2.40.2-9) over (2.38.1-5+deb12u1) ... Preparing to unpack .../isa-support_24_amd64.deb ... Unpacking isa-support:amd64 (24) over (15.1) ... Setting up isa-support:amd64 (24) ... (Reading database ... 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Unpacking liblapack3:amd64 (3.12.0-3+b1) over (3.11.0-2) ... Preparing to unpack .../12-libmuparser2v5_2.3.4-1+b1_amd64.deb ... Unpacking libmuparser2v5:amd64 (2.3.4-1+b1) over (2.3.3-0.1) ... Selecting previously unselected package libgromacs9:amd64. Preparing to unpack .../13-libgromacs9_2024.3-2_amd64.deb ... Unpacking libgromacs9:amd64 (2024.3-2) ... Preparing to unpack .../14-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) over (1.47.0-2) ... Preparing to unpack .../15-libss2_1.47.1-1+b1_amd64.deb ... Unpacking libss2:amd64 (1.47.1-1+b1) 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 gromacs-data (2024.3-2) ... Setting up libxau6:amd64 (1:1.0.9-1+b2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b2) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up libedit2:amd64 (3.1-20240808-1) ... Setting up libibumad3:amd64 (52.0-2+b1) ... Setting up libibmad5:amd64 (52.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up libgomp1:amd64 (14.2.0-6) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up gcc-12-base:amd64 (12.4.0-2) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Nov 3 10:06:15 UTC 2024. Universal Time is now: Sun Nov 3 10:06:15 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libz3-4:amd64 (4.8.12-3.1+b3) ... Setting up libblas3:amd64 (3.12.0-3+b1) ... Setting up libmunge2:amd64 (0.5.15-4+b1) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libquadmath0:amd64 (14.2.0-6) ... Setting up libhwloc15:amd64 (2.11.2-1) ... Setting up libatomic1:amd64 (14.2.0-6) ... Setting up libss2:amd64 (1.47.1-1+b1) ... Setting up libfftw3-double3:amd64 (3.3.10-1+b3) ... Setting up logsave (1.47.1-1+b1) ... Setting up libgfortran5:amd64 (14.2.0-6) ... Setting up libnuma1:amd64 (2.0.18-1+b1) ... Setting up mount (2.40.2-9) ... Setting up ocl-icd-libopencl1:amd64 (2.3.2-1+b2) ... Setting up sse4.2-support (24) ... Setting up libnl-3-200:amd64 (3.7.0-0.3+b1) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up libx11-6:amd64 (2:1.8.7-1+b2) ... Setting up mawk (1.3.4.20240905-1) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... 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 libmuparser2v5:amd64 (2.3.4-1+b1) ... Setting up libdrm-common (2.4.123-1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Setting up liblapack3:amd64 (3.12.0-3+b1) ... Setting up libfftw3-single3:amd64 (3.3.10-1+b3) ... 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 (1.47.1-1+b1) ... Installing new version of config file /etc/cron.d/e2scrub_all ... Installing new version of config file /etc/mke2fs.conf ... Setting up libnl-route-3-200:amd64 (3.7.0-0.3+b1) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b1) ... Setting up libllvm17t64:amd64 (1:17.0.6-18) ... Setting up libdrm2:amd64 (2.4.123-1) ... 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 libhwloc-plugins:amd64 (2.11.2-1) ... Setting up libpmix2t64:amd64 (5.0.3-2+b1) ... Setting up librdmacm1t64:amd64 (52.0-2+b1) ... Setting up libhsakmt1:amd64 (5.7.0-1) ... Setting up libfabric1:amd64 (1.17.0-3.1) ... Setting up libhsa-runtime64-1:amd64 (5.7.1-3) ... Setting up libamdhip64-5 (5.7.1-5) ... Setting up libucx0:amd64 (1.17.0+ds-3) ... Setting up libopenmpi3t64:amd64 (4.1.6-13.3) ... Setting up libgromacs9:amd64 (2024.3-2) ... Setting up gromacs (2024.3-2) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for debianutils (5.20) ... 0m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 0m51.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m52.7s DUMP: 7c1373650b8417f93d06502659eaa9b5 - 0m52.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m52.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 0m53.0s DUMP: Package: gromacs Version: 2024.3-2 Installed-Size: 461 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2024.3-2), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs9 (>= 2024.3), libopenmpi3t64 (>= 4.1.6), libstdc++6 (>= 11) Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description-en: Molecular dynamics simulator, with building and analysis tools GROMACS is a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles. . It is primarily designed for biochemical molecules like proteins and lipids that have a lot of complicated bonded interactions, but since GROMACS is extremely fast at calculating the nonbonded interactions (that usually dominate simulations) many groups are also using it for research on non- biological systems, e.g. polymers. . This package contains variants both for execution on a single machine, and using the MPI interface across multiple machines. Description-md5: b2bae23de6e584a47799dd4899a2c30a Homepage: https://www.gromacs.org/ Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2024.3-2_amd64.deb Size: 61304 MD5sum: e2f342452fe1dae77a74f01c90ad3529 SHA256: b412778271f2c36f86334548fa341e6e497628e1e0edac23d7dbcad9b0093b41 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 0m53.0s INFO: apt-cache knows about the following packages: gromacs 0m53.0s INFO: Running scripts pre_install 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 0m53.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 0m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 0m53.1s DUMP: gromacs: Installed: 2024.3-2 Candidate: 2024.3-2 Version table: *** 2024.3-2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 0m53.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 0m53.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 0m53.7s DUMP: Reading package lists... Building dependency tree... Reading state information... gromacs is already the newest version (2024.3-2). The following packages were automatically installed and are no longer required: libgromacs7 libquadmath0 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 0m53.7s INFO: Running scripts post_install 0m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 0m53.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 0m53.7s INFO: Running scripts post_distupgrade 0m53.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m53.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_exceptions'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_exceptions'] 0m53.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m53.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m53.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_zz_backports'] 0m53.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_zz_backports'] 0m53.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m55.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 0m55.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp4v_9g17h to sid 0m55.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m55.9s INFO: Running scripts pre_distupgrade 0m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_exceptions'] 0m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_exceptions'] 0m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m55.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m55.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 1m0.3s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7333 kB] Fetched 17.6 MB in 3s (5460 kB/s) Reading package lists... 1m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'update'] 1m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 1m9.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgromacs7 libquadmath0 Use 'sudo apt autoremove' to remove them. The following packages will be upgraded: gcc-14-base gpgv gromacs gromacs-data libatomic1 libaudit-common libaudit1 libdebconfclient0 libfftw3-double3 libfftw3-single3 libgcc-s1 libgfortran5 libgomp1 libgromacs9 libhsa-runtime64-1 libhsakmt1 libopenmpi3t64 libquadmath0 libstdc++6 libsystemd0 libudev1 libx11-6 libx11-data libxau6 tzdata 25 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 83.9 MB of archives. After this operation, 1135 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.2.45-2 [219 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:3 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-8 [47.2 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-8 [714 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-8 [145 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-8 [72.7 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-2 [12.3 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-2 [54.4 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.273 [10.1 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 256.7-3 [382 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 256.7-3 [145 kB] Get:14 http://deb.debian.org/debian sid/main amd64 tzdata all 2024b-3 [255 kB] Get:15 http://deb.debian.org/debian sid/main amd64 gromacs amd64 2024.4-1 [64.0 kB] Get:16 http://deb.debian.org/debian sid/main amd64 gromacs-data all 2024.4-1 [43.4 MB] Get:17 http://deb.debian.org/debian sid/main amd64 libfftw3-double3 amd64 3.3.10-2 [781 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libfftw3-single3 amd64 3.3.10-2 [809 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libopenmpi3t64 amd64 5.0.5-3 [2007 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libgromacs9 amd64 2024.4-1 [32.0 MB] Get:21 http://deb.debian.org/debian sid/main amd64 libhsakmt1 amd64 6.1.2+ds-1 [59.8 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libhsa-runtime64-1 amd64 6.1.2-2 [535 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.10-1 [337 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.10-1 [813 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 83.9 MB in 1s (156 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34705 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.45-2_amd64.deb ... Unpacking gpgv (2.2.45-2) over (2.2.44-1) ... Setting up gpgv (2.2.45-2) ... (Reading database ... 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Unpacking libfftw3-double3:amd64 (3.3.10-2) over (3.3.10-1+b3) ... Preparing to unpack .../04-libfftw3-single3_3.3.10-2_amd64.deb ... Unpacking libfftw3-single3:amd64 (3.3.10-2) over (3.3.10-1+b3) ... Preparing to unpack .../05-libopenmpi3t64_5.0.5-3_amd64.deb ... Unpacking libopenmpi3t64:amd64 (5.0.5-3) over (4.1.6-13.3) ... Preparing to unpack .../06-libgromacs9_2024.4-1_amd64.deb ... Unpacking libgromacs9:amd64 (2024.4-1) over (2024.3-2) ... Preparing to unpack .../07-libhsakmt1_6.1.2+ds-1_amd64.deb ... Unpacking libhsakmt1:amd64 (6.1.2+ds-1) over (5.7.0-1) ... Preparing to unpack .../08-libhsa-runtime64-1_6.1.2-2_amd64.deb ... Unpacking libhsa-runtime64-1:amd64 (6.1.2-2) over (5.7.1-3) ... Preparing to unpack .../09-libx11-data_2%3a1.8.10-1_all.deb ... Unpacking libx11-data (2:1.8.10-1) over (2:1.8.7-1) ... Preparing to unpack .../10-libx11-6_2%3a1.8.10-1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.10-1) over (2:1.8.7-1+b2) ... Preparing to unpack .../11-libxau6_1%3a1.0.11-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.11-1) over (1:1.0.9-1+b2) ... Setting up gromacs-data (2024.4-1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libgomp1:amd64 (14.2.0-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Nov 3 10:06:34 UTC 2024. Universal Time is now: Sun Nov 3 10:06:34 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libx11-data (2:1.8.10-1) ... Setting up libquadmath0:amd64 (14.2.0-8) ... Setting up libatomic1:amd64 (14.2.0-8) ... Setting up libfftw3-double3:amd64 (3.3.10-2) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libopenmpi3t64:amd64 (5.0.5-3) ... Setting up libx11-6:amd64 (2:1.8.10-1) ... Setting up libhsakmt1:amd64 (6.1.2+ds-1) ... Setting up libfftw3-single3:amd64 (3.3.10-2) ... Setting up libgromacs9:amd64 (2024.4-1) ... Setting up gromacs (2024.4-1) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-2) ... Processing triggers for libc-bin (2.40-3) ... 1m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-yf', 'dist-upgrade'] 1m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m10.2s DUMP: 7bec8b15faf64539d0a6c71ea2fe6e14 - 1m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 1m10.5s DUMP: Package: gromacs Version: 2024.4-1 Installed-Size: 453 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Depends: gromacs-data (= 2024.4-1), sse4.2-support, libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgromacs9 (>= 2024.4), libopenmpi3t64 (>= 5.0.5), libstdc++6 (>= 11) Recommends: cpp, mpi-default-bin Suggests: pymol Breaks: gromacs-mpi (<< 2022~), gromacs-mpich (<< 2021.1-2), gromacs-openmpi (<< 2021.1-2) Description-en: Molecular dynamics simulator, with building and analysis tools GROMACS is a versatile package to perform molecular dynamics, i.e. simulate the Newtonian equations of motion for systems with hundreds to millions of particles. . It is primarily designed for biochemical molecules like proteins and lipids that have a lot of complicated bonded interactions, but since GROMACS is extremely fast at calculating the nonbonded interactions (that usually dominate simulations) many groups are also using it for research on non- biological systems, e.g. polymers. . This package contains variants both for execution on a single machine, and using the MPI interface across multiple machines. Description-md5: b2bae23de6e584a47799dd4899a2c30a Homepage: https://www.gromacs.org/ Tag: field::biology, field::biology:structural, field::chemistry, implemented-in::c, interface::commandline, interface::graphical, interface::x11, role::program, uitoolkit::xlib, x11::application Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs_2024.4-1_amd64.deb Size: 63964 MD5sum: 89bac3312828940a114623f8c25ed43c SHA256: 4d68013dd7f1b692e45e2b9864825c44a87a5604ced535a856795b9938d2edf5 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'show', '--no-all-versions', 'gromacs'] 1m10.5s INFO: apt-cache knows about the following packages: gromacs 1m10.5s INFO: Running scripts pre_install 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m10.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 1m10.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 1m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 1m10.6s DUMP: gromacs: Installed: 2024.4-1 Candidate: 2024.4-1 Version table: *** 2024.4-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 1m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 1m11.3s DUMP: Reading package lists... Building dependency tree... Reading state information... gromacs is already the newest version (2024.4-1). The following packages were automatically installed and are no longer required: libgromacs7 libquadmath0 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs'] 1m11.3s INFO: Running scripts post_install 1m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 1m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 1m11.3s INFO: Running scripts post_distupgrade 1m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_exceptions'] 1m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_exceptions'] 1m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m11.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_zz_backports'] 1m11.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_distupgrade_zz_backports'] 1m11.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m13.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m13.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m15.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m15.2s INFO: Running scripts pre_install 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_database-server'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_exceptions'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_extras'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 1m15.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy'] 1m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 1m15.3s DUMP: gromacs: Installed: 2024.4-1 Candidate: 2024.4-1 Version table: *** 2024.4-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-cache', 'policy', 'gromacs'] 1m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs=2024.4-1'] 1m16.0s DUMP: Reading package lists... Building dependency tree... Reading state information... gromacs is already the newest version (2024.4-1). The following packages were automatically installed and are no longer required: libgromacs7 libquadmath0 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', '-y', 'install', 'gromacs=2024.4-1'] 1m16.0s INFO: Running scripts post_install 1m16.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 1m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_install_exceptions'] 1m16.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m18.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] /srv/piuparts.debian.org/sbin/piuparts:1643: DeprecationWarning: The 'warn' function is deprecated, use 'warning' instead logging.warn("History of available packages does not match - reference chroot may be outdated") 1m18.2s WARNING: History of available packages does not match - reference chroot may be outdated 1m18.2s DEBUG: reference: 14b5c1b94e8a6c425b0bba0e4df4ee12 812378a09710177ee0d120e7324d7d04 040cb4bae384eb0f995869b8c10acfba 1m18.2s DEBUG: current : 14b5c1b94e8a6c425b0bba0e4df4ee12 7c1373650b8417f93d06502659eaa9b5 7bec8b15faf64539d0a6c71ea2fe6e14 1m22.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', '-ac', '--ignore-obsolete'] 1m26.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', '-ac', '--ignore-obsolete'] 1m26.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m26.3s DUMP: 0.15.6 1m26.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m26.3s INFO: Running adequate version 0.15.6 now. 1m26.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'gromacs'] 1m26.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'gromacs'] 1m26.6s INFO: Running scripts pre_remove 1m26.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m26.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m26.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m26.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m26.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m31.1s DUMP: UNOWNED SYMLINK /usr/lib/x86_64-linux-gnu/libmpi_usempi_ignore_tkr-gfortranso.40 -> libmpi_usempi_ignore_tkr-gfortran.so.40.30.0 1m31.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m31.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m31.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m31.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_exceptions'] 1m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/pre_remove_exceptions'] 1m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m31.5s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.9.10 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-9 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1+b1 install ok installed findutils findutils 4.10.0-3 install ok installed fonts-mathjax fonts-mathjax 2.7.9+dfsg-1 install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gromacs gromacs 2024.4-1 install ok installed gromacs-data gromacs-data 2024.4-1 install ok installed gzip gzip 1.12-1.1 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 1.67 install ok installed isa-support:amd64 isa-support 24 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 libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.10 install ok installed libatomic1:amd64 libatomic1 14.2.0-8 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.1-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-2 install ok installed libblas3:amd64 libblas3 3.12.0-3+b1 install ok installed libblkid1:amd64 libblkid1 2.40.2-9 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 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-3 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.273 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 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 1.47.1-1+b1 install ok installed libfabric1:amd64 libfabric1 1.17.0-3.1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfftw3-double3:amd64 libfftw3-double3 3.3.10-2 install ok installed libfftw3-single3:amd64 libfftw3-single3 3.3.10-2 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-8 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2+b1 install ok installed libgomp1:amd64 libgomp1 14.2.0-8 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libgromacs7:amd64 libgromacs7 2022.5-2 install ok installed libgromacs9:amd64 libgromacs9 2024.4-1 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 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 libjs-mathjax libjs-mathjax 2.7.9+dfsg-1 install ok installed liblapack3:amd64 liblapack3 3.12.0-3+b1 install ok installed libllvm17t64:amd64 libllvm17t64 1:17.0.6-18 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 libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-9 install ok installed libmunge2:amd64 libmunge2 0.5.15-4+b1 install ok installed libmuparser2v5:amd64 libmuparser2v5 2.3.4-1+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+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 libnuma1:amd64 libnuma1 2.0.18-1+b1 install ok installed libopenmpi3t64:amd64 libopenmpi3t64 5.0.5-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 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 10.42-4+b2 install ok installed libpmix2t64:amd64 libpmix2t64 5.0.3-2+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 libquadmath0:amd64 libquadmath0 14.2.0-8 install ok installed librdmacm1t64:amd64 librdmacm1t64 52.0-2+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b2 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-9 install ok installed libss2:amd64 libss2 1.47.1-1+b1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 256.7-3 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 256.7-3 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-9 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-1 install ok installed libx11-data libx11-data 2:1.8.10-1 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 1:1.1.2-3+b2 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b2 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.1 install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libz3-4:amd64 libz3-4 4.8.12-3.1+b3 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-9 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1+b1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-9 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 openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.40.0-6 install ok installed sed sed 4.9-2 install ok installed sse4.2-support sse4.2-support 24 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-9 install ok installed util-linux-extra util-linux-extra 2.40.2-9 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 1m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'remove', 'fonts-mathjax', 'gromacs-data', 'ibverbs-providers:amd64', 'isa-support:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs7:amd64', 'libgromacs9:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libmuparser2v5:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi3t64:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'ocl-icd-libopencl1:amd64', 'sse4.2-support', 'gromacs'] 1m33.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fonts-mathjax gromacs gromacs-data ibverbs-providers isa-support libamd-comgr2 libamdhip64-5 libatomic1 libblas3 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libfabric1 libfftw3-double3 libfftw3-single3 libgfortran5 libgomp1 libgromacs7 libgromacs9 libhsa-runtime64-1 libhsakmt1 libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libicu72 libjs-mathjax liblapack3 libllvm17t64 libmunge2 libmuparser2v5 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi3t64 libpciaccess0 libpmix2t64 libpsm-infinipath1 libpsm2-2 libquadmath0 librdmacm1t64 libucx0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 libz3-4 ocl-icd-libopencl1 sse4.2-support 0 upgraded, 0 newly installed, 58 to remove and 0 not upgraded. After this operation, 847 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 ... 34545 files and directories currently installed.) Removing gromacs (2024.4-1) ... Removing gromacs-data (2024.4-1) ... Removing libjs-mathjax (2.7.9+dfsg-1) ... Removing fonts-mathjax (2.7.9+dfsg-1) ... Removing libgromacs9:amd64 (2024.4-1) ... Removing libgromacs7:amd64 (2022.5-2) ... Removing libopenmpi3t64:amd64 (5.0.5-3) ... 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 sse4.2-support (24) ... Removing isa-support:amd64 (24) ... Removing libamdhip64-5 (5.7.1-5) ... Removing libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Removing libatomic1:amd64 (14.2.0-8) ... Removing liblapack3:amd64 (3.12.0-3+b1) ... Removing libblas3:amd64 (3.12.0-3+b1) ... 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 (1:17.0.6-18) ... Removing libedit2:amd64 (3.1-20240808-1) ... Removing libelf1t64:amd64 (0.192-4) ... Removing libpmix2t64:amd64 (5.0.3-2+b1) ... 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 libfftw3-double3:amd64 (3.3.10-2) ... Removing libfftw3-single3:amd64 (3.3.10-2) ... Removing libgfortran5:amd64 (14.2.0-8) ... Removing libmuparser2v5:amd64 (2.3.4-1+b1) ... Removing libgomp1:amd64 (14.2.0-8) ... 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+really2.9.14-0.1) ... Removing libicu72:amd64 (72.1-5+b1) ... Removing libmunge2:amd64 (0.5.15-4+b1) ... Removing libnl-route-3-200:amd64 (3.7.0-0.3+b1) ... Removing libnl-3-200:amd64 (3.7.0-0.3+b1) ... Removing libpsm2-2 (11.2.185-2.1) ... Removing libnuma1:amd64 (2.0.18-1+b1) ... Removing libpciaccess0:amd64 (0.17-3+b2) ... 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 libquadmath0:amd64 (14.2.0-8) ... Removing libxnvctrl0:amd64 (535.171.04-1+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b2) ... Removing libx11-6:amd64 (2:1.8.10-1) ... Removing libx11-data (2:1.8.10-1) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3+b2) ... Removing libz3-4:amd64 (4.8.12-3.1+b3) ... Removing ocl-icd-libopencl1:amd64 (2.3.2-1+b2) ... Processing triggers for libc-bin (2.40-3) ... 1m33.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'remove', 'fonts-mathjax', 'gromacs-data', 'ibverbs-providers:amd64', 'isa-support:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs7:amd64', 'libgromacs9:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libmuparser2v5:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi3t64:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'ocl-icd-libopencl1:amd64', 'sse4.2-support', 'gromacs'] 1m33.7s INFO: Running scripts post_remove 1m33.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_remove_exceptions'] 1m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_remove_exceptions'] 1m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', 'fonts-mathjax', 'gromacs-data', 'ibverbs-providers:amd64', 'isa-support:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs7:amd64', 'libgromacs9:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libmuparser2v5:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi3t64:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'ocl-icd-libopencl1:amd64', 'sse4.2-support'] 1m33.9s DUMP: dpkg: warning: ignoring request to remove fonts-mathjax which isn't installed dpkg: warning: ignoring request to remove gromacs-data which isn't installed (Reading database ... 5322 files and directories currently installed.) Purging configuration files for ibverbs-providers:amd64 (52.0-2+b1) ... dpkg: warning: ignoring request to remove isa-support 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 libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 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 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 libfabric1 which isn't installed dpkg: warning: ignoring request to remove libfftw3-double3 which isn't installed dpkg: warning: ignoring request to remove libfftw3-single3 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgromacs7 which isn't installed dpkg: warning: ignoring request to remove libgromacs9 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 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 libjs-mathjax which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libllvm17t64 which isn't installed dpkg: warning: ignoring request to remove libmunge2 which isn't installed dpkg: warning: ignoring request to remove libmuparser2v5 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 libnuma1 which isn't installed dpkg: warning: ignoring request to remove libopenmpi3t64 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpmix2t64 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 libquadmath0 which isn't installed dpkg: warning: ignoring request to remove librdmacm1t64 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 libxext6 which isn't installed 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 libz3-4 which isn't installed dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed Purging configuration files for sse4.2-support (24) ... 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', 'fonts-mathjax', 'gromacs-data', 'ibverbs-providers:amd64', 'isa-support:amd64', 'libamd-comgr2:amd64', 'libamdhip64-5', 'libatomic1:amd64', 'libblas3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libfabric1:amd64', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs7:amd64', 'libgromacs9:amd64', 'libhsa-runtime64-1:amd64', 'libhsakmt1:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libicu72:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'libllvm17t64:amd64', 'libmunge2:amd64', 'libmuparser2v5:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libopenmpi3t64:amd64', 'libpciaccess0:amd64', 'libpmix2t64:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libquadmath0:amd64', 'librdmacm1t64:amd64', 'libucx0:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxnvctrl0:amd64', 'libz3-4:amd64', 'ocl-icd-libopencl1:amd64', 'sse4.2-support'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', 'gromacs'] 1m33.9s DUMP: dpkg: warning: ignoring request to remove gromacs which isn't installed 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', 'gromacs'] 1m33.9s INFO: Running scripts post_purge 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_purge_exceptions'] 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_purge_exceptions'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', '--pending'] 1m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--purge', '--pending'] 1m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--remove', '--pending'] 1m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg', '--remove', '--pending'] 1m34.0s INFO: Running scripts post_test 1m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_test_exceptions'] 1m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'tmp/scripts/post_test_exceptions'] 1m34.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m34.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m34.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-divert', '--list'] 1m34.4s 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 1m34.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'dpkg-divert', '--list'] 1m34.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'clean'] 1m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h', 'apt-get', 'clean'] 1m34.5s DEBUG: Recording chroot state 1m35.3s INFO: Warning: Package purging left files on system: /usr/lib/x86_64-linux-gnu/libmpi_usempi_ignore_tkr-gfortranso.40 -> libmpi_usempi_ignore_tkr-gfortran.so.40.30.0 not owned 1m35.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/shm'] 1m35.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/shm'] 1m35.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/console'] 1m35.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/console'] 1m35.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/ptmx'] 1m35.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/ptmx'] 1m35.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts'] 1m35.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/dev/pts'] 1m35.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/proc'] 1m35.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h/proc'] 1m35.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m35.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4v_9g17h'] 1m36.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp4v_9g17h 1m36.0s INFO: PASS: Upgrading between Debian distributions. 1m36.0s INFO: PASS: All tests. 1m36.0s INFO: piuparts run ends. ret=0 End: 2024-11-03 10:07:01 GMT