Start: 2023-02-06 08:57:05 GMT [stretch] Package: gromacs-mpich Source: gromacs Version: 2016.1-2 Installed-Size: 21511 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-dev (<< 4.6.3-3~) Depends: mpich, libc6 (>= 2.15), libfftw3-double3, libfftw3-single3, libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libhwloc5 (>= 1.11.4), libmpich12, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0) Recommends: gromacs Suggests: gromacs-data Breaks: gromacs-dev (<< 4.6.3-3~) Description: Molecular dynamics sim, binaries for MPICH parallelization Homepage: http://www.gromacs.org/ Description-md5: befd212127fab1c214923ce24592496e Tag: devel::lang:c, devel::library, field::biology, field::chemistry, implemented-in::c, interface::commandline, role::devel-lib, role::program, scope::utility, works-with::software:package Section: science Priority: extra Filename: pool/main/g/gromacs/gromacs-mpich_2016.1-2_amd64.deb Size: 7793416 MD5sum: a71cc95bbdeef1897ad5472fb62cc7f5 SHA256: 74a78298374f7e4d4bbdc5f5a28e8205448eb9792ed1cbb7735e80431f3c9de2 [buster] Package: gromacs-mpich Source: gromacs Version: 2019.1-1 Installed-Size: 23268 Maintainer: Debichem Team Architecture: amd64 Depends: mpich, libc6 (>= 2.27), libfftw3-double3 (>= 3.3.5), libfftw3-single3 (>= 3.3.5), libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libhwloc5 (>= 1.11.12), libmpich12, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0) Recommends: gromacs Suggests: gromacs-data Description: Molecular dynamics sim, binaries for MPICH parallelization Homepage: http://www.gromacs.org/ Description-md5: befd212127fab1c214923ce24592496e Tag: devel::lang:c, devel::library, field::biology, field::chemistry, implemented-in::c, interface::commandline, role::devel-lib, role::program, scope::utility, works-with::software:package Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs-mpich_2019.1-1_amd64.deb Size: 8243748 MD5sum: d09897f2c0ace10ceeeeb4ba304eba93 SHA256: dbb3340803754d562c0c69764e39bc806068ec07bd3b859b10ca6ee26633e2af Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --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/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt gromacs-mpich=2019.1-1 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 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --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/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt gromacs-mpich=2019.1-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpes38jypt 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpes38jypt 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpes38jypt/proc'] 0m1.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpes38jypt/proc'] 0m1.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts'] 0m1.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts'] 0m1.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/ptmx'] 0m1.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/ptmx'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/console'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/console'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/shm'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/shm'] 0m1.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.3s DEBUG: Created policy-rc.d and chmodded it. 0m1.3s DEBUG: Created resolv.conf. 0m1.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpes38jypt/tmp/scripts/ 0m1.3s INFO: Running scripts post_chroot_unpack 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'update'] 0m2.4s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'update'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-yf', 'dist-upgrade'] 0m2.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-yf', 'dist-upgrade'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.0s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.0s INFO: Running scripts post_setup 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_dummy_users'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_dummy_users'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '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/tmpes38jypt', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_setup_zz_backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.6s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '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/stretch2Xbuster-rcmd/reference-chroot-metadata.dat 0m3.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 0m3.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 0m3.8s INFO: Running scripts is_testable 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/is_testable_uninstallable'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/is_testable_uninstallable'] 0m3.9s INFO: Running scripts pre_test 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_test_exceptions'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_test_exceptions'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_test_root_password'] 0m3.9s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_test_root_password'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'show', '--no-all-versions', 'gromacs-mpich'] 0m4.1s DUMP: Package: gromacs-mpich Source: gromacs Version: 2016.1-2 Installed-Size: 21511 Maintainer: Debichem Team Architecture: amd64 Replaces: gromacs-dev (<< 4.6.3-3~) Depends: mpich, libc6 (>= 2.15), libfftw3-double3, libfftw3-single3, libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libhwloc5 (>= 1.11.4), libmpich12, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0) Recommends: gromacs Suggests: gromacs-data Breaks: gromacs-dev (<< 4.6.3-3~) Description-en: Molecular dynamics sim, binaries for MPICH parallelization 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 only the core simulation engine with parallel support using the MPICH (v3) interface. It is suitable for nodes of a processing cluster, or for multiprocessor machines. Description-md5: befd212127fab1c214923ce24592496e Homepage: http://www.gromacs.org/ Tag: devel::lang:c, devel::library, field::biology, field::chemistry, implemented-in::c, interface::commandline, role::devel-lib, role::program, scope::utility, works-with::software:package Section: science Priority: extra Filename: pool/main/g/gromacs/gromacs-mpich_2016.1-2_amd64.deb Size: 7793416 MD5sum: a71cc95bbdeef1897ad5472fb62cc7f5 SHA256: 74a78298374f7e4d4bbdc5f5a28e8205448eb9792ed1cbb7735e80431f3c9de2 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'show', '--no-all-versions', 'gromacs-mpich'] 0m4.1s INFO: apt-cache knows about the following packages: gromacs-mpich 0m4.1s INFO: Running scripts pre_install 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 0m4.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 0m4.2s DUMP: gromacs-mpich: Installed: (none) Candidate: 2016.1-2 Version table: 2016.1-2 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich'] 0m26.3s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: binutils cpp cpp-6 g++ g++-6 gcc gcc-6 gfortran gfortran-6 gromacs gromacs-data hwloc-nox libasan3 libatomic1 libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcc1-0 libcilkrts5 libcr-dev libcr0 libfftw3-double3 libfftw3-single3 libgcc-6-dev libgfortran-6-dev libgfortran3 libgmp10 libgomp1 libgromacs2 libhwloc-plugins libhwloc5 libicu57 libisl15 libitm1 liblapack3 liblsan0 libltdl7 libmpc3 libmpfr4 libmpich-dev libmpich12 libmpx2 libnuma1 libpciaccess0 libquadmath0 libstdc++-6-dev libtsan0 libubsan0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxml2 linux-libc-dev manpages manpages-dev mpich ocl-icd-libopencl1 sgml-base xml-core Suggested packages: binutils-doc cpp-doc gcc-6-locales g++-multilib g++-6-multilib gcc-6-doc libstdc++6-6-dbg gcc-multilib make autoconf automake libtool flex bison gdb gcc-doc gcc-6-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan3-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg libquadmath0-dbg gfortran-multilib gfortran-doc gfortran-6-multilib gfortran-6-doc libgfortran3-dbg libcoarrays-dev pymol tcsh | c-shell glibc-doc blcr-dkms libfftw3-bin libfftw3-dev libhwloc-contrib-plugins pciutils libstdc++-6-doc man-browser blcr-util mpich-doc opencl-icd sgml-base-doc debhelper The following NEW packages will be installed: binutils cpp cpp-6 g++ g++-6 gcc gcc-6 gfortran gfortran-6 gromacs gromacs-data gromacs-mpich hwloc-nox libasan3 libatomic1 libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcc1-0 libcilkrts5 libcr-dev libcr0 libfftw3-double3 libfftw3-single3 libgcc-6-dev libgfortran-6-dev libgfortran3 libgmp10 libgomp1 libgromacs2 libhwloc-plugins libhwloc5 libicu57 libisl15 libitm1 liblapack3 liblsan0 libltdl7 libmpc3 libmpfr4 libmpich-dev libmpich12 libmpx2 libnuma1 libpciaccess0 libquadmath0 libstdc++-6-dev libtsan0 libubsan0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxml2 linux-libc-dev manpages manpages-dev mpich ocl-icd-libopencl1 sgml-base xml-core 0 upgraded, 64 newly installed, 0 to remove and 0 not upgraded. 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libmpx2 amd64 6.3.0-18+deb9u1 [11.2 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libgcc-6-dev amd64 6.3.0-18+deb9u1 [2296 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 gcc-6 amd64 6.3.0-18+deb9u1 [6900 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 gcc amd64 4:6.3.0-4 [5196 B] Get:27 http://deb.debian.org/debian stretch/main amd64 libc-dev-bin amd64 2.24-11+deb9u4 [259 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 linux-libc-dev amd64 4.9.228-1 [1511 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 libc6-dev amd64 2.24-11+deb9u4 [2364 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 libstdc++-6-dev amd64 6.3.0-18+deb9u1 [1420 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 g++-6 amd64 6.3.0-18+deb9u1 [7094 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 g++ amd64 4:6.3.0-4 [1546 B] Get:33 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libfftw3-single3 amd64 3.3.5-3 [776 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 libltdl7 amd64 2.4.6-2 [389 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 libnuma1 amd64 2.0.11-2.1 [33.3 kB] Get:47 http://deb.debian.org/debian stretch/main amd64 libpciaccess0 amd64 0.13.4-1+b2 [50.0 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libxcb1 amd64 1.12-1 [133 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libx11-data all 2:1.6.4-3+deb9u1 [287 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libx11-6 amd64 2:1.6.4-3+deb9u1 [748 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 manpages-dev all 4.10-2 [2145 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 gromacs-data all 2016.1-2 [22.1 MB] Get:55 http://deb.debian.org/debian stretch/main amd64 libhwloc5 amd64 1.11.5-1 [105 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 libgromacs2 amd64 2016.1-2 [11.3 MB] Get:57 http://deb.debian.org/debian stretch/main amd64 gromacs amd64 2016.1-2 [234 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 hwloc-nox amd64 1.11.5-1 [152 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libmpich12 amd64 3.2-7+b1 [901 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 mpich amd64 3.2-7+b1 [221 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 gromacs-mpich amd64 2016.1-2 [7793 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1 [36.8 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 libhwloc-plugins amd64 1.11.5-1 [16.1 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 libmpich-dev amd64 3.2-7+b1 [1267 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 104 MB in 8s (12.0 MB/s) Selecting previously unselected package libxau6:amd64. 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Unpacking hwloc-nox (1.11.5-1) ... Selecting previously unselected package libmpich12:amd64. Preparing to unpack .../58-libmpich12_3.2-7+b1_amd64.deb ... Unpacking libmpich12:amd64 (3.2-7+b1) ... Selecting previously unselected package mpich. Preparing to unpack .../59-mpich_3.2-7+b1_amd64.deb ... Unpacking mpich (3.2-7+b1) ... Selecting previously unselected package gromacs-mpich. Preparing to unpack .../60-gromacs-mpich_2016.1-2_amd64.deb ... Unpacking gromacs-mpich (2016.1-2) ... Selecting previously unselected package ocl-icd-libopencl1:amd64. Preparing to unpack .../61-ocl-icd-libopencl1_2.2.11-1_amd64.deb ... Unpacking ocl-icd-libopencl1:amd64 (2.2.11-1) ... Selecting previously unselected package libhwloc-plugins. Preparing to unpack .../62-libhwloc-plugins_1.11.5-1_amd64.deb ... Unpacking libhwloc-plugins (1.11.5-1) ... Selecting previously unselected package libmpich-dev. Preparing to unpack .../63-libmpich-dev_3.2-7+b1_amd64.deb ... Unpacking libmpich-dev (3.2-7+b1) ... Setting up libquadmath0:amd64 (6.3.0-18+deb9u1) ... Setting up libgomp1:amd64 (6.3.0-18+deb9u1) ... Setting up libatomic1:amd64 (6.3.0-18+deb9u1) ... Setting up manpages (4.10-2) ... Setting up libcc1-0:amd64 (6.3.0-18+deb9u1) ... Setting up libasan3:amd64 (6.3.0-18+deb9u1) ... Setting up libcr0 (0.8.5-2.3+b1) ... Setting up gromacs-data (2016.1-2) ... Setting up libcilkrts5:amd64 (6.3.0-18+deb9u1) ... Setting up libblas-common (3.7.0-2) ... Setting up libnuma1:amd64 (2.0.11-2.1) ... Setting up libubsan0:amd64 (6.3.0-18+deb9u1) ... Setting up libtsan0:amd64 (6.3.0-18+deb9u1) ... Setting up libgfortran3:amd64 (6.3.0-18+deb9u1) ... Setting up linux-libc-dev:amd64 (4.9.228-1) ... Setting up sgml-base (1.29) ... Setting up libfftw3-double3:amd64 (3.3.5-3) ... Setting up libicu57:amd64 (57.1-6+deb9u4) ... Setting up libbsd0:amd64 (0.8.3-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u2) ... Setting up liblsan0:amd64 (6.3.0-18+deb9u1) ... Setting up libmpx2:amd64 (6.3.0-18+deb9u1) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-1) ... Setting up libblas3 (3.7.0-2) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up libltdl7:amd64 (2.4.6-2) ... Setting up libmpfr4:amd64 (3.1.5-1) ... Setting up libpciaccess0:amd64 (0.13.4-1+b2) ... Setting up libfftw3-single3:amd64 (3.3.5-3) ... Setting up libmpc3:amd64 (1.0.3-1+b2) ... Setting up binutils (2.28-5) ... Setting up libc-dev-bin (2.24-11+deb9u4) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up xml-core (0.17) ... Setting up ocl-icd-libopencl1:amd64 (2.2.11-1) ... Setting up manpages-dev (4.10-2) ... Setting up libc6-dev:amd64 (2.24-11+deb9u4) ... Setting up libitm1:amd64 (6.3.0-18+deb9u1) ... Setting up libx11-data (2:1.6.4-3+deb9u1) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up libcr-dev (0.8.5-2.3+b1) ... Setting up libmpich12:amd64 (3.2-7+b1) ... Setting up libgcc-6-dev:amd64 (6.3.0-18+deb9u1) ... Setting up libstdc++-6-dev:amd64 (6.3.0-18+deb9u1) ... Setting up liblapack3 (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libgfortran-6-dev:amd64 (6.3.0-18+deb9u1) ... Setting up libhwloc5:amd64 (1.11.5-1) ... Setting up libhwloc-plugins (1.11.5-1) ... Setting up libisl15:amd64 (0.18-1) ... Setting up cpp-6 (6.3.0-18+deb9u1) ... Setting up libxcb1:amd64 (1.12-1) ... Setting up hwloc-nox (1.11.5-1) ... Setting up cpp (4:6.3.0-4) ... Setting up mpich (3.2-7+b1) ... update-alternatives: using /usr/bin/mpirun.mpich to provide /usr/bin/mpirun (mpirun) in auto mode Setting up gromacs-mpich (2016.1-2) ... update-alternatives: using /usr/bin/mdrun_mpi.mpich to provide /usr/bin/mdrun_mpi (mdrun_mpi) in auto mode Setting up libgromacs2 (2016.1-2) ... Setting up libx11-6:amd64 (2:1.6.4-3+deb9u1) ... Setting up gcc-6 (6.3.0-18+deb9u1) ... Setting up g++-6 (6.3.0-18+deb9u1) ... Setting up gfortran-6 (6.3.0-18+deb9u1) ... Setting up gromacs (2016.1-2) ... Setting up gcc (4:6.3.0-4) ... Setting up g++ (4:6.3.0-4) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up gfortran (4:6.3.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libmpich-dev (3.2-7+b1) ... update-alternatives: using /usr/include/mpich to provide /usr/include/mpi (mpi) in auto mode Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... 0m26.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich'] 0m26.3s INFO: Running scripts post_install 0m26.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 0m26.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 0m26.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 0m27.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 0m27.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpes38jypt to buster 0m27.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m27.0s INFO: Running scripts pre_distupgrade 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_exceptions'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_exceptions'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'update'] 0m30.4s DUMP: Get:1 http://deb.debian.org/debian buster InRelease [122 kB] Get:2 http://deb.debian.org/debian buster/main amd64 Packages [7909 kB] Get:3 http://deb.debian.org/debian buster/main Translation-en [5969 kB] Fetched 14.0 MB in 2s (5522 kB/s) Reading package lists... 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'update'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'upgrade'] 0m36.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages have been kept back: apt bash binutils coreutils cpp dash dpkg e2fslibs e2fsprogs g++ gcc gfortran gpgv gromacs gromacs-data gromacs-mpich hwloc-nox libapt-pkg5.0 libatomic1 libblas3 libblkid1 libbsd0 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcilkrts5 libcomerr2 libfdisk1 libgcc1 libgomp1 libgpg-error0 libitm1 liblapack3 liblsan0 libmount1 libmpc3 libmpich-dev libmpich12 libmpx2 libncursesw5 libpam-modules libpam-modules-bin libquadmath0 libsmartcols1 libss2 libstdc++6 libsystemd0 libtinfo5 libtsan0 libubsan0 libudev1 libuuid1 libxml2 login mount mpich ncurses-base ncurses-bin perl-base util-linux The following packages will be upgraded: adduser base-files base-passwd bsdutils debconf debian-archive-keyring debianutils diffutils findutils grep gzip hostname init-system-helpers libacl1 libattr1 libaudit-common libaudit1 libbz2-1.0 libcap-ng0 libdb5.3 libdebconfclient0 libfftw3-double3 libfftw3-single3 libgcrypt20 libgmp10 libhwloc-plugins libhwloc5 libltdl7 liblz4-1 liblzma5 libnuma1 libpam-runtime libpam0g libpciaccess0 libpcre3 libselinux1 libsemanage-common libsemanage1 libsepol1 libx11-6 libx11-data libxau6 libxcb1 linux-libc-dev manpages manpages-dev multiarch-support ocl-icd-libopencl1 passwd sed sensible-utils sysvinit-utils tar xml-core zlib1g 55 upgraded, 0 newly installed, 0 to remove and 62 not upgraded. Need to get 16.4 MB of archives. After this operation, 1916 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 base-files amd64 10.3+deb10u13 [69.9 kB] Get:2 http://deb.debian.org/debian buster/main amd64 bsdutils amd64 1:2.33.1-0.1 [121 kB] Get:3 http://deb.debian.org/debian buster/main amd64 debianutils amd64 4.8.6.1 [100 kB] Get:4 http://deb.debian.org/debian buster/main amd64 diffutils amd64 1:3.7-3 [371 kB] Get:5 http://deb.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20190209-2 [684 kB] Get:6 http://deb.debian.org/debian buster/main amd64 grep amd64 3.3-1 [373 kB] Get:7 http://deb.debian.org/debian buster/main amd64 gzip amd64 1.9-3+deb10u1 [128 kB] Get:8 http://deb.debian.org/debian buster/main amd64 hostname amd64 3.21 [14.8 kB] Get:9 http://deb.debian.org/debian buster/main amd64 sed amd64 4.7-1 [310 kB] Get:10 http://deb.debian.org/debian buster/main amd64 tar amd64 1.30+dfsg-6 [780 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.249 [49.1 kB] Get:12 http://deb.debian.org/debian buster/main amd64 base-passwd amd64 3.5.46 [56.7 kB] Get:13 http://deb.debian.org/debian buster/main amd64 init-system-helpers all 1.56+nmu1 [46.8 kB] Get:14 http://deb.debian.org/debian buster/main amd64 sysvinit-utils amd64 2.93-8 [78.4 kB] Get:15 http://deb.debian.org/debian buster/main amd64 debconf all 1.5.71+deb10u1 [145 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libpam-runtime all 1.3.1-5 [211 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libaudit-common all 1:2.8.4-3 [22.4 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libcap-ng0 amd64 0.7.9-2 [14.3 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.8.4-3 [57.3 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libpam0g amd64 1.3.1-5 [126 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-12 [341 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libselinux1 amd64 2.8-1+b1 [86.9 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libsepol1 amd64 2.8-1 [263 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libsemanage-common all 2.8-2 [17.7 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libsemanage1 amd64 2.8-2 [96.5 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u1 [45.3 kB] Get:27 http://deb.debian.org/debian buster/main amd64 passwd amd64 1:4.5-1.1 [1005 kB] Get:28 http://deb.debian.org/debian buster/main amd64 adduser all 3.118 [240 kB] Get:29 http://deb.debian.org/debian buster/main amd64 debian-archive-keyring all 2019.1+deb10u1 [93.5 kB] Get:30 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libattr1 amd64 1:2.4.48-4 [21.3 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libacl1 amd64 2.2.53-4 [30.4 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.5 [683 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.8.4-5+deb10u1 [556 kB] Get:35 http://deb.debian.org/debian buster/main amd64 liblz4-1 amd64 1.8.3-1+deb10u1 [53.3 kB] Get:36 http://deb.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.4-1+deb10u1 [153 kB] Get:37 http://deb.debian.org/debian buster/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u1 [90.8 kB] Get:38 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:39 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libfftw3-double3 amd64 3.3.8-2 [733 kB] Get:41 http://deb.debian.org/debian buster/main amd64 libfftw3-single3 amd64 3.3.8-2 [762 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-4+deb10u1 [251 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libnuma1 amd64 2.0.12-1 [26.2 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libhwloc5 amd64 1.11.12-3 [111 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libpciaccess0 amd64 0.14-1 [53.5 kB] Get:47 http://deb.debian.org/debian buster/main amd64 ocl-icd-libopencl1 amd64 2.2.12-2 [37.5 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libhwloc-plugins amd64 1.11.12-3 [17.4 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:53 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:54 http://deb.debian.org/debian buster/main amd64 multiarch-support amd64 2.28-10+deb10u1 [216 kB] Get:55 http://deb.debian.org/debian buster/main amd64 xml-core all 0.18+nmu1 [23.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 16.4 MB in 0s (74.3 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27948 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a2.8.4-3_all.deb ... Unpacking libaudit-common (1:2.8.4-3) over (1:2.6.7-2) ... Setting up libaudit-common (1:2.8.4-3) ... (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 ... 27948 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2) over (0.7.7-3+b1) ... Setting up libcap-ng0:amd64 (0.7.9-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27947 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.4-3_amd64.deb ... Unpacking libaudit1:amd64 (1:2.8.4-3) over (1:2.6.7-2) ... Setting up libaudit1:amd64 (1:2.8.4-3) ... (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 ... 27947 files and directories currently installed.) Preparing to unpack .../libpam0g_1.3.1-5_amd64.deb ... Unpacking libpam0g:amd64 (1.3.1-5) over (1.1.8-3.6) ... Setting up libpam0g:amd64 (1.3.1-5) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (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 ... 27947 files and directories currently installed.) Preparing to unpack .../libpcre3_2%3a8.39-12_amd64.deb ... Unpacking libpcre3:amd64 (2:8.39-12) over (2:8.39-3) ... Setting up libpcre3:amd64 (2:8.39-12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27947 files and directories currently installed.) Preparing to unpack .../libselinux1_2.8-1+b1_amd64.deb ... Unpacking libselinux1:amd64 (2.8-1+b1) over (2.6-3+b3) ... Setting up libselinux1:amd64 (2.8-1+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 ... 27946 files and directories currently installed.) Preparing to unpack .../libsepol1_2.8-1_amd64.deb ... Unpacking libsepol1:amd64 (2.8-1) over (2.6-2) ... Setting up libsepol1:amd64 (2.8-1) ... (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 ... 27945 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.8-2_all.deb ... Unpacking libsemanage-common (2.8-2) over (2.6-2) ... Setting up libsemanage-common (2.8-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27944 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.8-2_amd64.deb ... Unpacking libsemanage1:amd64 (2.8-2) over (2.6-2) ... Setting up libsemanage1:amd64 (2.8-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27943 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.6-9.2~deb10u1_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.6-9.2~deb10u1) over (1.0.6-8.1) ... Setting up libbz2-1.0:amd64 (1.0.6-9.2~deb10u1) ... (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 ... 27943 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.5-1.1_amd64.deb ... Unpacking passwd (1:4.5-1.1) over (1:4.4-4.1) ... Setting up passwd (1:4.5-1.1) ... (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 ... 27943 files and directories currently installed.) Preparing to unpack .../archives/adduser_3.118_all.deb ... Unpacking adduser (3.118) over (3.115) ... Setting up adduser (3.118) ... (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 ... 27943 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2019.1+deb10u1_all.deb ... Unpacking debian-archive-keyring (2019.1+deb10u1) over (2017.5+deb9u1) ... Setting up debian-archive-keyring (2019.1+deb10u1) ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-stable.gpg ... (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 ... 27952 files and directories currently installed.) Preparing to unpack .../sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) over (0.0.9+deb9u1) ... Setting up sensible-utils (0.0.12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 27946 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.4.48-4_amd64.deb ... Unpacking libattr1:amd64 (1:2.4.48-4) over (1:2.4.47-2+b2) ... Setting up libattr1:amd64 (1:2.4.48-4) ... (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 ... 27946 files and directories currently installed.) Preparing to unpack .../libacl1_2.2.53-4_amd64.deb ... Unpacking libacl1:amd64 (2.2.53-4) over (2.2.52-3+b1) ... Setting up libacl1:amd64 (2.2.53-4) ... (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 ... 27945 files and directories currently installed.) Preparing to unpack .../libdb5.3_5.3.28+dfsg1-0.5_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28+dfsg1-0.5) over (5.3.28-12+deb9u1) ... Setting up libdb5.3:amd64 (5.3.28+dfsg1-0.5) ... (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 ... 27945 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.8.4-5+deb10u1_amd64.deb ... Unpacking libgcrypt20:amd64 (1.8.4-5+deb10u1) over (1.7.6-2+deb9u3) ... Setting up libgcrypt20:amd64 (1.8.4-5+deb10u1) ... (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 ... 27945 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.8.3-1+deb10u1_amd64.deb ... Unpacking liblz4-1:amd64 (1.8.3-1+deb10u1) over (0.0~r131-2+b1) ... Setting up liblz4-1:amd64 (1.8.3-1+deb10u1) ... (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 ... 27944 files and directories currently installed.) Preparing to unpack .../liblzma5_5.2.4-1+deb10u1_amd64.deb ... Unpacking liblzma5:amd64 (5.2.4-1+deb10u1) over (5.2.2-1.2+b1) ... Setting up liblzma5:amd64 (5.2.4-1+deb10u1) ... (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 ... 27943 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.2.11.dfsg-1+deb10u1_amd64.deb ... Unpacking zlib1g:amd64 (1:1.2.11.dfsg-1+deb10u1) over (1:1.2.8.dfsg-5) ... Setting up zlib1g:amd64 (1:1.2.11.dfsg-1+deb10u1) ... dpkg: considering deconfiguration of manpages-dev, which would be broken by installation of manpages ... dpkg: yes, will deconfigure manpages-dev (broken by manpages) (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 ... 27943 files and directories currently installed.) Preparing to unpack .../00-manpages_4.16-2_all.deb ... De-configuring manpages-dev (4.10-2) ... Unpacking manpages (4.16-2) over (4.10-2) ... Preparing to unpack .../01-manpages-dev_4.16-2_all.deb ... Unpacking manpages-dev (4.16-2) over (4.10-2) ... Preparing to unpack .../02-libfftw3-double3_3.3.8-2_amd64.deb ... Unpacking libfftw3-double3:amd64 (3.3.8-2) over (3.3.5-3) ... 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Setting up manpages (4.16-2) ... Setting up libnuma1:amd64 (2.0.12-1) ... Setting up multiarch-support (2.28-10+deb10u1) ... Setting up linux-libc-dev:amd64 (4.19.249-2) ... Processing triggers for sgml-base (1.29) ... Setting up libfftw3-double3:amd64 (3.3.8-2) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-4+deb10u1) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libpciaccess0:amd64 (0.14-1) ... Setting up libfftw3-single3:amd64 (3.3.8-2) ... Setting up xml-core (0.18+nmu1) ... Setting up ocl-icd-libopencl1:amd64 (2.2.12-2) ... Setting up manpages-dev (4.16-2) ... Setting up libx11-data (2:1.6.7-1+deb10u2) ... Setting up libxau6:amd64 (1:1.0.8-1+b2) ... Setting up libhwloc5:amd64 (1.11.12-3) ... Setting up libhwloc-plugins:amd64 (1.11.12-3) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'upgrade'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-yf', 'dist-upgrade'] 1m6.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: cpp-6 g++-6 gcc-6 gcc-7-base gfortran-6 libasan3 libblas-common libcilkrts5 libcr-dev libcr0 libgcc-6-dev libgfortran-6-dev libgfortran3 libgromacs2 libicu57 libisl15 libmpfr4 libstdc++-6-dev libubsan0 sgml-base xml-core Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: binutils-common binutils-x86-64-linux-gnu ca-certificates cpp-8 e2fsprogs-l10n fdisk fonts-mathjax g++-8 gcc-7-base gcc-8 gcc-8-base gfortran-8 libasan5 libbinutils libcom-err2 libext2fs2 libffi6 libgcc-8-dev libgfortran-8-dev libgfortran5 libgnutls30 libgpg-error-l10n libgpm2 libgromacs4 libhogweed4 libicu63 libidn2-0 libisl19 libjs-mathjax libmpfr6 libncursesw6 libnettle6 libp11-kit0 libseccomp2 libssl1.1 libstdc++-8-dev libtasn1-6 libtinfo6 libubsan1 libunistring2 libzstd1 openssl The following packages will be upgraded: apt bash binutils coreutils cpp dash dpkg e2fslibs e2fsprogs g++ gcc gfortran gpgv gromacs gromacs-data gromacs-mpich hwloc-nox libapt-pkg5.0 libatomic1 libblas3 libblkid1 libbsd0 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcilkrts5 libcomerr2 libfdisk1 libgcc1 libgomp1 libgpg-error0 libitm1 liblapack3 liblsan0 libmount1 libmpc3 libmpich-dev libmpich12 libmpx2 libncursesw5 libpam-modules libpam-modules-bin libquadmath0 libsmartcols1 libss2 libstdc++6 libsystemd0 libtinfo5 libtsan0 libubsan0 libudev1 libuuid1 libxml2 login mount mpich ncurses-base ncurses-bin perl-base util-linux 62 upgraded, 42 newly installed, 0 to remove and 0 not upgraded. Need to get 156 MB of archives. After this operation, 367 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:3 http://deb.debian.org/debian buster/main amd64 libc6 amd64 2.28-10+deb10u1 [2863 kB] Get:4 http://deb.debian.org/debian buster/main amd64 libc-bin amd64 2.28-10+deb10u1 [795 kB] Get:5 http://deb.debian.org/debian buster/main amd64 gcc-8-base amd64 8.3.0-6 [191 kB] Get:6 http://deb.debian.org/debian buster/main amd64 libgcc1 amd64 1:8.3.0-6 [40.6 kB] Get:7 http://deb.debian.org/debian buster/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u2 [325 kB] Get:8 http://deb.debian.org/debian buster/main amd64 bash amd64 5.0-4 [1378 kB] Get:9 http://deb.debian.org/debian buster/main amd64 coreutils amd64 8.30-3 [2708 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libzstd1 amd64 1.3.8+dfsg-3+deb10u2 [237 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libnettle6 amd64 3.4.1-1+deb10u1 [215 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libhogweed4 amd64 3.4.1-1+deb10u1 [141 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.10-1 [381 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.5-1+deb10u1 [76.7 kB] Get:15 http://deb.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-9 [20.8 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.15-2+deb10u1 [316 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.13-3 [51.9 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libgnutls30 amd64 3.6.7-4+deb10u8 [1126 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libseccomp2 amd64 2.3.3-4 [41.4 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.35-1 [71.1 kB] Get:21 http://deb.debian.org/debian buster/main amd64 gpgv amd64 2.2.12-1+deb10u2 [584 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libstdc++6 amd64 8.3.0-6 [395 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.8.2.3 [967 kB] Get:24 http://deb.debian.org/debian buster/main amd64 apt amd64 1.8.2.3 [1418 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libsystemd0 amd64 241-7~deb10u8 [331 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libudev1 amd64 241-7~deb10u8 [151 kB] Get:27 http://deb.debian.org/debian buster/main amd64 dpkg amd64 1.19.8 [2210 kB] Get:28 http://deb.debian.org/debian buster/main amd64 dash amd64 0.5.10.2-5 [112 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libcom-err2 amd64 1.44.5-1+deb10u3 [68.4 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libcomerr2 amd64 1.44.5-1+deb10u3 [64.2 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libext2fs2 amd64 1.44.5-1+deb10u3 [221 kB] Get:32 http://deb.debian.org/debian buster/main amd64 e2fslibs amd64 1.44.5-1+deb10u3 [64.2 kB] Get:33 http://deb.debian.org/debian buster/main amd64 e2fsprogs amd64 1.44.5-1+deb10u3 [576 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libuuid1 amd64 2.33.1-0.1 [78.3 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libblkid1 amd64 2.33.1-0.1 [195 kB] Get:36 http://deb.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.33.1-0.1 [150 kB] Get:37 http://deb.debian.org/debian buster/main amd64 libfdisk1 amd64 2.33.1-0.1 [234 kB] Get:38 http://deb.debian.org/debian buster/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u2 [132 kB] Get:39 http://deb.debian.org/debian buster/main amd64 libmount1 amd64 2.33.1-0.1 [207 kB] Get:40 http://deb.debian.org/debian buster/main amd64 fdisk amd64 2.33.1-0.1 [179 kB] Get:41 http://deb.debian.org/debian buster/main amd64 login amd64 1:4.5-1.1 [751 kB] Get:42 http://deb.debian.org/debian buster/main amd64 util-linux amd64 2.33.1-0.1 [1062 kB] Get:43 http://deb.debian.org/debian buster/main amd64 mount amd64 2.33.1-0.1 [174 kB] Get:44 http://deb.debian.org/debian buster/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u2 [406 kB] Get:45 http://deb.debian.org/debian buster/main amd64 perl-base amd64 5.28.1-6+deb10u1 [1514 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libtinfo5 amd64 6.1+20181013-2+deb10u2 [321 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libncursesw5 amd64 6.1+20181013-2+deb10u2 [118 kB] Get:48 http://deb.debian.org/debian buster/main amd64 ncurses-base all 6.1+20181013-2+deb10u2 [258 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libpam-modules-bin amd64 1.3.1-5 [107 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libpam-modules amd64 1.3.1-5 [309 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libss2 amd64 1.44.5-1+deb10u3 [72.9 kB] Get:52 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:53 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:55 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:57 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:58 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libmpfr6 amd64 4.0.2-1 [775 kB] Get:62 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:63 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:64 http://deb.debian.org/debian buster/main amd64 e2fsprogs-l10n all 1.44.5-1+deb10u3 [504 kB] Get:65 http://deb.debian.org/debian buster/main amd64 fonts-mathjax all 2.7.4+dfsg-1 [2209 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:69 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:70 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:71 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:72 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:73 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:74 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:77 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:78 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:79 http://deb.debian.org/debian buster/main amd64 libstdc++-8-dev amd64 8.3.0-6 [1532 kB] Get:80 http://deb.debian.org/debian buster/main amd64 g++-8 amd64 8.3.0-6 [9752 kB] Get:81 http://deb.debian.org/debian buster/main amd64 g++ amd64 4:8.3.0-1 [1644 B] Get:82 http://deb.debian.org/debian buster/main amd64 gcc-7-base amd64 7.4.0-6 [190 kB] Get:83 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:84 http://deb.debian.org/debian buster/main amd64 libgfortran-8-dev amd64 8.3.0-6 [616 kB] Get:85 http://deb.debian.org/debian buster/main amd64 gfortran-8 amd64 8.3.0-6 [9375 kB] Get:86 http://deb.debian.org/debian buster/main amd64 gfortran amd64 4:8.3.0-1 [1432 B] Get:87 http://deb.debian.org/debian buster/main amd64 libjs-mathjax all 2.7.4+dfsg-1 [5658 kB] Get:88 http://deb.debian.org/debian buster/main amd64 gromacs amd64 2019.1-1 [127 kB] Get:89 http://deb.debian.org/debian buster/main amd64 gromacs-data all 2019.1-1 [32.7 MB] Get:90 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:91 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:92 http://deb.debian.org/debian buster/main amd64 libgromacs4 amd64 2019.1-1 [12.3 MB] Get:93 http://deb.debian.org/debian buster/main amd64 libmpich-dev amd64 3.3-3 [1429 kB] Get:94 http://deb.debian.org/debian buster/main amd64 mpich amd64 3.3-3 [411 kB] Get:95 http://deb.debian.org/debian buster/main amd64 libmpich12 amd64 3.3-3 [1169 kB] Get:96 http://deb.debian.org/debian buster/main amd64 hwloc-nox amd64 1.11.12-3 [159 kB] Get:97 http://deb.debian.org/debian buster/main amd64 gromacs-mpich amd64 2019.1-1 [8244 kB] Get:98 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:99 http://deb.debian.org/debian buster/main amd64 libcilkrts5 amd64 7.4.0-6 [42.2 kB] Get:100 http://deb.debian.org/debian buster/main amd64 libgpg-error-l10n all 1.35-1 [97.6 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:103 http://deb.debian.org/debian buster/main amd64 libubsan0 amd64 7.4.0-6 [124 kB] Get:104 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 156 MB in 5s (30.2 MB/s) (Reading database ... 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Setting up libc6:amd64 (2.28-10+deb10u1) ... Installing new version of config file /etc/ld.so.conf.d/x86_64-linux-gnu.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 ... 28126 files and directories currently installed.) Preparing to unpack .../libc-bin_2.28-10+deb10u1_amd64.deb ... Unpacking libc-bin (2.28-10+deb10u1) over (2.24-11+deb9u4) ... Setting up libc-bin (2.28-10+deb10u1) ... Updating /etc/nsswitch.conf to current default. Selecting previously unselected package gcc-8-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 ... 28126 files and directories currently installed.) Preparing to unpack .../gcc-8-base_8.3.0-6_amd64.deb ... Unpacking gcc-8-base:amd64 (8.3.0-6) ... Setting up gcc-8-base:amd64 (8.3.0-6) ... (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 ... 28132 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libtinfo6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libtinfo6:amd64 (6.1+20181013-2+deb10u2) ... (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 ... 28160 files and directories currently installed.) Preparing to unpack .../libunistring2_0.9.10-1_amd64.deb ... Unpacking libunistring2:amd64 (0.9.10-1) ... Setting up libunistring2:amd64 (0.9.10-1) ... Selecting previously unselected package libidn2-0:amd64. (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 28200 files and directories currently installed.) Preparing to unpack .../libffi6_3.2.1-9_amd64.deb ... Unpacking libffi6:amd64 (3.2.1-9) ... Setting up libffi6:amd64 (3.2.1-9) ... Selecting previously unselected package libp11-kit0: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 ... 28205 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.23.15-2+deb10u1_amd64.deb ... Unpacking libp11-kit0:amd64 (0.23.15-2+deb10u1) ... Setting up libp11-kit0:amd64 (0.23.15-2+deb10u1) ... Selecting previously unselected package libtasn1-6: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 ... 28213 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.13-3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.13-3) ... Setting up libtasn1-6:amd64 (4.13-3) ... Selecting previously unselected package libgnutls30: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 ... 28222 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.7-4+deb10u8_amd64.deb ... Unpacking libgnutls30:amd64 (3.6.7-4+deb10u8) ... Setting up libgnutls30:amd64 (3.6.7-4+deb10u8) ... Selecting previously unselected package libseccomp2: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 ... 28250 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.3.3-4_amd64.deb ... Unpacking libseccomp2:amd64 (2.3.3-4) ... Setting up libseccomp2:amd64 (2.3.3-4) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 28237 files and directories currently installed.) Preparing to unpack .../archives/apt_1.8.2.3_amd64.deb ... Unpacking apt (1.8.2.3) over (1.4.10) ... Preparing to unpack .../libapt-pkg5.0_1.8.2.3_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.8.2.3) over (1.4.10) ... Setting up libapt-pkg5.0:amd64 (1.8.2.3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 28265 files and directories currently installed.) Preparing to unpack .../libsystemd0_241-7~deb10u8_amd64.deb ... Unpacking libsystemd0:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libsystemd0:amd64 (241-7~deb10u8) ... (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 ... 28265 files and directories currently installed.) Preparing to unpack .../libudev1_241-7~deb10u8_amd64.deb ... Unpacking libudev1:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libudev1:amd64 (241-7~deb10u8) ... (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 ... 28265 files and directories currently installed.) Preparing to unpack .../archives/dpkg_1.19.8_amd64.deb ... Unpacking dpkg (1.19.8) over (1.18.25) ... Setting up dpkg (1.19.8) ... Installing new version of config file /etc/alternatives/README ... Installing new version of config file /etc/cron.daily/dpkg ... Installing new version of config file /etc/logrotate.d/dpkg ... (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 ... 28263 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-5_amd64.deb ... Unpacking dash (0.5.10.2-5) over (0.5.8-2.4) ... Setting up dash (0.5.10.2-5) ... (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 ... 28264 files and directories currently installed.) Preparing to unpack .../libcomerr2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcomerr2:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../libcom-err2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcom-err2:amd64 (1.44.5-1+deb10u3) ... Setting up libcom-err2:amd64 (1.44.5-1+deb10u3) ... (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 ... 28267 files and directories currently installed.) Preparing to unpack .../e2fslibs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libext2fs2:amd64. Preparing to unpack .../libext2fs2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1+deb10u3) ... Setting up libext2fs2:amd64 (1.44.5-1+deb10u3) ... (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 ... 28270 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fsprogs (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Setting up e2fsprogs (1.44.5-1+deb10u3) ... Installing new version of config file /etc/mke2fs.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 ... 28253 files and directories currently installed.) Preparing to unpack .../libblkid1_2.33.1-0.1_amd64.deb ... Unpacking libblkid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libblkid1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 28253 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.33.1-0.1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libsmartcols1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 28253 files and directories currently installed.) Preparing to unpack .../libfdisk1_2.33.1-0.1_amd64.deb ... Unpacking libfdisk1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libfdisk1:amd64 (2.33.1-0.1) ... Selecting previously unselected package libncursesw6: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 ... 28253 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... (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 ... 28262 files and directories currently installed.) Preparing to unpack .../libmount1_2.33.1-0.1_amd64.deb ... Unpacking libmount1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libmount1:amd64 (2.33.1-0.1) ... (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 ... 28298 files and directories currently installed.) Preparing to unpack .../00-binutils_2.31.1-16_amd64.deb ... Unpacking binutils (2.31.1-16) over (2.28-5) ... Selecting previously unselected package binutils-common:amd64. Preparing to unpack .../01-binutils-common_2.31.1-16_amd64.deb ... Unpacking binutils-common:amd64 (2.31.1-16) ... Selecting previously unselected package libbinutils:amd64. 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Preparing to unpack .../08-libmpc3_1.1.0-1_amd64.deb ... Unpacking libmpc3:amd64 (1.1.0-1) over (1.0.3-1+b2) ... Selecting previously unselected package libmpfr6:amd64. Preparing to unpack .../09-libmpfr6_4.0.2-1_amd64.deb ... Unpacking libmpfr6:amd64 (4.0.2-1) ... Selecting previously unselected package cpp-8. Preparing to unpack .../10-cpp-8_8.3.0-6_amd64.deb ... Unpacking cpp-8 (8.3.0-6) ... Preparing to unpack .../11-cpp_4%3a8.3.0-1_amd64.deb ... Unpacking cpp (4:8.3.0-1) over (4:6.3.0-4) ... Selecting previously unselected package e2fsprogs-l10n. Preparing to unpack .../12-e2fsprogs-l10n_1.44.5-1+deb10u3_all.deb ... Unpacking e2fsprogs-l10n (1.44.5-1+deb10u3) ... Selecting previously unselected package fonts-mathjax. Preparing to unpack .../13-fonts-mathjax_2.7.4+dfsg-1_all.deb ... Unpacking fonts-mathjax (2.7.4+dfsg-1) ... Preparing to unpack .../14-libcc1-0_8.3.0-6_amd64.deb ... Unpacking libcc1-0:amd64 (8.3.0-6) over (6.3.0-18+deb9u1) ... 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Unpacking gromacs (2019.1-1) over (2016.1-2) ... Preparing to unpack .../37-gromacs-data_2019.1-1_all.deb ... Unpacking gromacs-data (2019.1-1) over (2016.1-2) ... Preparing to unpack .../38-libblas3_3.8.0-2_amd64.deb ... Unpacking libblas3:amd64 (3.8.0-2) over (3.7.0-2) ... Preparing to unpack .../39-liblapack3_3.8.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.8.0-2) over (3.7.0-2) ... Selecting previously unselected package libgromacs4:amd64. Preparing to unpack .../40-libgromacs4_2019.1-1_amd64.deb ... Unpacking libgromacs4:amd64 (2019.1-1) ... Preparing to unpack .../41-libmpich-dev_3.3-3_amd64.deb ... Unpacking libmpich-dev:amd64 (3.3-3) over (3.2-7+b1) ... Preparing to unpack .../42-mpich_3.3-3_amd64.deb ... Removing pre-multiarch 'mpi' alternative(s) update-alternatives: warning: alternative /usr/include/mpich (part of link group mpi) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/mpi is dangling; it will be updated with best choice Unpacking mpich (3.3-3) over (3.2-7+b1) ... Preparing to unpack .../43-libmpich12_3.3-3_amd64.deb ... Unpacking libmpich12:amd64 (3.3-3) over (3.2-7+b1) ... Preparing to unpack .../44-hwloc-nox_1.11.12-3_amd64.deb ... Unpacking hwloc-nox (1.11.12-3) over (1.11.5-1) ... Preparing to unpack .../45-gromacs-mpich_2019.1-1_amd64.deb ... Unpacking gromacs-mpich (2019.1-1) over (2016.1-2) ... Preparing to unpack .../46-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) over (0.8.3-1) ... Preparing to unpack .../47-libcilkrts5_7.4.0-6_amd64.deb ... Unpacking libcilkrts5:amd64 (7.4.0-6) over (6.3.0-18+deb9u1) ... Selecting previously unselected package libgpg-error-l10n. Preparing to unpack .../48-libgpg-error-l10n_1.35-1_all.deb ... Unpacking libgpg-error-l10n (1.35-1) ... Selecting previously unselected package libgpm2:amd64. Preparing to unpack .../49-libgpm2_1.20.7-5_amd64.deb ... Unpacking libgpm2:amd64 (1.20.7-5) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../50-libicu63_63.1-6+deb10u3_amd64.deb ... Unpacking libicu63:amd64 (63.1-6+deb10u3) ... Preparing to unpack .../51-libubsan0_7.4.0-6_amd64.deb ... Unpacking libubsan0:amd64 (7.4.0-6) over (6.3.0-18+deb9u1) ... Preparing to unpack .../52-libxml2_2.9.4+dfsg1-7+deb10u4_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) over (2.9.4+dfsg1-2.2+deb9u2) ... Setting up apt (1.8.2.3) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Setting up fonts-mathjax (2.7.4+dfsg-1) ... Setting up libgpm2:amd64 (1.20.7-5) ... Setting up e2fslibs:amd64 (1.44.5-1+deb10u3) ... Setting up libjs-mathjax (2.7.4+dfsg-1) ... Setting up e2fsprogs-l10n (1.44.5-1+deb10u3) ... Setting up libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Setting up hwloc-nox (1.11.12-3) ... Setting up binutils-common:amd64 (2.31.1-16) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up libicu63:amd64 (63.1-6+deb10u3) ... Setting up libasan5:amd64 (8.3.0-6) ... Setting up gcc-7-base:amd64 (7.4.0-6) ... Setting up libmpfr6:amd64 (4.0.2-1) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libmpc3:amd64 (1.1.0-1) ... Setting up libatomic1:amd64 (8.3.0-6) ... Setting up util-linux (2.33.1-0.1) ... update-alternatives: warning: alternative /usr/bin/pg (part of link group pager) doesn't exist; removing from list of alternatives Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up libmpx2:amd64 (8.3.0-6) ... Setting up libubsan1:amd64 (8.3.0-6) ... Setting up libisl19:amd64 (0.20-2) ... Setting up mount (2.33.1-0.1) ... Setting up libmpich12:amd64 (3.3-3) ... Setting up libcomerr2:amd64 (1.44.5-1+deb10u3) ... Setting up libcilkrts5:amd64 (7.4.0-6) ... Setting up libubsan0:amd64 (7.4.0-6) ... Setting up libbinutils:amd64 (2.31.1-16) ... Setting up cpp-8 (8.3.0-6) ... Setting up libc-dev-bin (2.28-10+deb10u1) ... Setting up openssl (1.1.1n-0+deb10u3) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libgpg-error-l10n (1.35-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Setting up libcc1-0:amd64 (8.3.0-6) ... Setting up liblsan0:amd64 (8.3.0-6) ... Setting up libitm1:amd64 (8.3.0-6) ... Setting up binutils-x86-64-linux-gnu (2.31.1-16) ... Setting up libtsan0:amd64 (8.3.0-6) ... Setting up gromacs-data (2019.1-1) ... Setting up mpich (3.3-3) ... update-alternatives: using /usr/bin/mpicc.mpich to provide /usr/bin/mpicc (mpi) in auto mode Setting up binutils (2.31.1-16) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 137 added, 0 removed; done. Setting up libblas3:amd64 (3.8.0-2) ... 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 libgcc-8-dev:amd64 (8.3.0-6) ... Setting up cpp (4:8.3.0-1) ... Setting up libc6-dev:amd64 (2.28-10+deb10u1) ... Setting up gromacs-mpich (2019.1-1) ... update-alternatives: updating alternative /usr/bin/mdrun_mpi.mpich because link group mdrun_mpi has changed slave links Setting up libstdc++-8-dev:amd64 (8.3.0-6) ... Setting up libgfortran-8-dev:amd64 (8.3.0-6) ... Setting up liblapack3:amd64 (3.8.0-2) ... 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 gcc-8 (8.3.0-6) ... Setting up gfortran-8 (8.3.0-6) ... Setting up gcc (4:8.3.0-1) ... Setting up g++-8 (8.3.0-6) ... Setting up libgromacs4:amd64 (2019.1-1) ... Setting up gromacs (2019.1-1) ... Setting up gfortran (4:8.3.0-1) ... Setting up g++ (4:8.3.0-1) ... Setting up libmpich-dev:amd64 (3.3-3) ... update-alternatives: using /usr/include/x86_64-linux-gnu/mpich to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-yf', 'dist-upgrade'] 1m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m6.9s DUMP: f6fc0f2636004ef589309651dfd778f4 - 1m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'show', '--no-all-versions', 'gromacs-mpich'] 1m7.1s DUMP: Package: gromacs-mpich Source: gromacs Version: 2019.1-1 Installed-Size: 23268 Maintainer: Debichem Team Architecture: amd64 Depends: mpich, libc6 (>= 2.27), libfftw3-double3 (>= 3.3.5), libfftw3-single3 (>= 3.3.5), libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libhwloc5 (>= 1.11.12), libmpich12, libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0) Recommends: gromacs Suggests: gromacs-data Description-en: Molecular dynamics sim, binaries for MPICH parallelization 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 only the core simulation engine with parallel support using the MPICH (v3) interface. It is suitable for nodes of a processing cluster, or for multiprocessor machines. Description-md5: befd212127fab1c214923ce24592496e Homepage: http://www.gromacs.org/ Tag: devel::lang:c, devel::library, field::biology, field::chemistry, implemented-in::c, interface::commandline, role::devel-lib, role::program, scope::utility, works-with::software:package Section: science Priority: optional Filename: pool/main/g/gromacs/gromacs-mpich_2019.1-1_amd64.deb Size: 8243748 MD5sum: d09897f2c0ace10ceeeeb4ba304eba93 SHA256: dbb3340803754d562c0c69764e39bc806068ec07bd3b859b10ca6ee26633e2af 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'show', '--no-all-versions', 'gromacs-mpich'] 1m7.1s INFO: apt-cache knows about the following packages: gromacs-mpich 1m7.1s INFO: Running scripts pre_install 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 1m7.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 1m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 1m7.2s DUMP: gromacs-mpich: Installed: 2019.1-1 Candidate: 2019.1-1 Version table: *** 2019.1-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 1m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich'] 1m7.5s DUMP: Reading package lists... Building dependency tree... Reading state information... gromacs-mpich is already the newest version (2019.1-1). The following packages were automatically installed and are no longer required: cpp-6 g++-6 gcc-6 gcc-7-base gfortran-6 libasan3 libblas-common libcilkrts5 libcr-dev libcr0 libgcc-6-dev libgfortran-6-dev libgfortran3 libgromacs2 libicu57 libisl15 libmpfr4 libstdc++-6-dev libubsan0 sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich'] 1m7.5s INFO: Running scripts post_install 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 1m7.5s INFO: Running scripts post_distupgrade 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_exceptions'] 1m7.7s DUMP: Running pam-auth-update... 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_exceptions'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_zz_backports'] 1m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_distupgrade_zz_backports'] 1m7.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m8.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m8.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m9.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m9.8s INFO: Running scripts pre_install 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_database-server'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_exceptions'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_extras'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 1m9.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy'] 1m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 1m9.9s DUMP: gromacs-mpich: Installed: 2019.1-1 Candidate: 2019.1-1 Version table: *** 2019.1-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-cache', 'policy', 'gromacs-mpich'] 1m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich=2019.1-1'] 1m10.3s DUMP: Reading package lists... Building dependency tree... Reading state information... gromacs-mpich is already the newest version (2019.1-1). The following packages were automatically installed and are no longer required: cpp-6 g++-6 gcc-6 gcc-7-base gfortran-6 libasan3 libblas-common libcilkrts5 libcr-dev libcr0 libgcc-6-dev libgfortran-6-dev libgfortran3 libgromacs2 libicu57 libisl15 libmpfr4 libstdc++-6-dev libubsan0 sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', '-y', 'install', 'gromacs-mpich=2019.1-1'] 1m10.3s INFO: Running scripts post_install 1m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 1m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_install_exceptions'] 1m10.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m11.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m13.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '-ac', '--ignore-obsolete'] 1m17.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpes38jypt', '-ac', '--ignore-obsolete'] 1m17.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m17.5s DUMP: 0.15.6 1m17.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m17.5s INFO: Running adequate version 0.15.6 now. 1m17.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'gromacs-mpich'] 1m17.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'gromacs-mpich'] 1m17.6s INFO: Running scripts pre_remove 1m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m17.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m17.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m17.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m17.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_exceptions'] 1m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/pre_remove_exceptions'] 1m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m23.3s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed coreutils coreutils 8.30-3 install ok installed cpp cpp 4:8.3.0-1 install ok installed cpp-6 cpp-6 6.3.0-18+deb9u1 install ok installed cpp-8 cpp-8 8.3.0-6 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fslibs:amd64 e2fslibs 1.44.5-1+deb10u3 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed e2fsprogs-l10n e2fsprogs-l10n 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fonts-mathjax fonts-mathjax 2.7.4+dfsg-1 install ok installed g++ g++ 4:8.3.0-1 install ok installed g++-6 g++-6 6.3.0-18+deb9u1 install ok installed g++-8 g++-8 8.3.0-6 install ok installed gcc gcc 4:8.3.0-1 install ok installed gcc-6 gcc-6 6.3.0-18+deb9u1 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gcc-7-base:amd64 gcc-7-base 7.4.0-6 install ok installed gcc-8 gcc-8 8.3.0-6 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gfortran gfortran 4:8.3.0-1 install ok installed gfortran-6 gfortran-6 6.3.0-18+deb9u1 install ok installed gfortran-8 gfortran-8 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gromacs gromacs 2019.1-1 install ok installed gromacs-data gromacs-data 2019.1-1 install ok installed gromacs-mpich gromacs-mpich 2019.1-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed hwloc-nox hwloc-nox 1.11.12-3 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libasan3:amd64 libasan3 6.3.0-18+deb9u1 install ok installed libasan5:amd64 libasan5 8.3.0-6 install ok installed libatomic1:amd64 libatomic1 8.3.0-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblas-common libblas-common 3.7.0-2 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbsd0:amd64 libbsd0 0.9.1-2+deb10u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc-dev-bin libc-dev-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libc6-dev:amd64 libc6-dev 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcc1-0:amd64 libcc1-0 8.3.0-6 install ok installed libcilkrts5:amd64 libcilkrts5 7.4.0-6 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcomerr2:amd64 libcomerr2 1.44.5-1+deb10u3 install ok installed libcr-dev libcr-dev 0.8.5-2.3+b1 install ok installed libcr0 libcr0 0.8.5-2.3+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libfftw3-double3:amd64 libfftw3-double3 3.3.8-2 install ok installed libfftw3-single3:amd64 libfftw3-single3 3.3.8-2 install ok installed libgcc-6-dev:amd64 libgcc-6-dev 6.3.0-18+deb9u1 install ok installed libgcc-8-dev:amd64 libgcc-8-dev 8.3.0-6 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgfortran-6-dev:amd64 libgfortran-6-dev 6.3.0-18+deb9u1 install ok installed libgfortran-8-dev:amd64 libgfortran-8-dev 8.3.0-6 install ok installed libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error-l10n libgpg-error-l10n 1.35-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgpm2:amd64 libgpm2 1.20.7-5 install ok installed libgromacs2 libgromacs2 2016.1-2 install ok installed libgromacs4:amd64 libgromacs4 2019.1-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhwloc-plugins:amd64 libhwloc-plugins 1.11.12-3 install ok installed libhwloc5:amd64 libhwloc5 1.11.12-3 install ok installed libicu57:amd64 libicu57 57.1-6+deb9u4 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libisl15:amd64 libisl15 0.18-1 install ok installed libisl19:amd64 libisl19 0.20-2 install ok installed libitm1:amd64 libitm1 8.3.0-6 install ok installed libjs-mathjax libjs-mathjax 2.7.4+dfsg-1 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed liblsan0:amd64 liblsan0 8.3.0-6 install ok installed libltdl7:amd64 libltdl7 2.4.6-9 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpc3:amd64 libmpc3 1.1.0-1 install ok installed libmpfr4:amd64 libmpfr4 3.1.5-1 install ok installed libmpfr6:amd64 libmpfr6 4.0.2-1 install ok installed libmpich-dev:amd64 libmpich-dev 3.3-3 install ok installed libmpich12:amd64 libmpich12 3.3-3 install ok installed libmpx2:amd64 libmpx2 8.3.0-6 install ok installed libncursesw5:amd64 libncursesw5 6.1+20181013-2+deb10u2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libnuma1:amd64 libnuma1 2.0.12-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpciaccess0:amd64 libpciaccess0 0.14-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u3 install ok installed libstdc++-6-dev:amd64 libstdc++-6-dev 6.3.0-18+deb9u1 install ok installed libstdc++-8-dev:amd64 libstdc++-8-dev 8.3.0-6 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtinfo5:amd64 libtinfo5 6.1+20181013-2+deb10u2 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libtsan0:amd64 libtsan0 8.3.0-6 install ok installed libubsan0:amd64 libubsan0 7.4.0-6 install ok installed libubsan1:amd64 libubsan1 8.3.0-6 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.6.7-1+deb10u2 install ok installed libx11-data libx11-data 2:1.6.7-1+deb10u2 install ok installed libxau6:amd64 libxau6 1:1.0.8-1+b2 install ok installed libxcb1:amd64 libxcb1 1.13.1-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.19.249-2 install ok installed login login 1:4.5-1.1 install ok installed manpages manpages 4.16-2 install ok installed manpages-dev manpages-dev 4.16-2 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 install ok installed mpich mpich 3.3-3 install ok installed multiarch-support multiarch-support 2.28-10+deb10u1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.2.12-2 install ok installed openssl openssl 1.1.1n-0+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.12 install ok installed sgml-base sgml-base 1.29 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed xml-core xml-core 0.18+nmu1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 1m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cpp', 'cpp-6', 'cpp-8', 'fonts-mathjax', 'g++-', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gfortran', 'gfortran-6', 'gfortran-8', 'gromacs', 'gromacs-data', 'hwloc-nox', 'libasan3:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcr-dev', 'libcr0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgfortran-6-dev:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs2', 'libgromacs4:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpich-dev:amd64', 'libmpich12:amd64', 'libmpx2:amd64', 'libnuma1:amd64', 'libpciaccess0:amd64', 'libquadmath0:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxml2:amd64', 'linux-libc-dev:amd64', 'manpages', 'manpages-dev', 'mpich', 'ocl-icd-libopencl1:amd64', 'sgml-base', 'xml-core', 'gromacs-mpich'] 1m24.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-6 cpp-8 fonts-mathjax g++ g++-6 g++-8 gcc gcc-6 gcc-7-base gcc-8 gfortran gfortran-6 gfortran-8 gromacs gromacs-data gromacs-mpich hwloc-nox libasan3 libasan5 libatomic1 libbinutils libblas-common libblas3 libbsd0 libc-dev-bin libc6-dev libcc1-0 libcilkrts5 libcr-dev libcr0 libfftw3-double3 libfftw3-single3 libgcc-6-dev libgcc-8-dev libgfortran-6-dev libgfortran-8-dev libgfortran3 libgfortran5 libgomp1 libgromacs2 libgromacs4 libhwloc-plugins libhwloc5 libicu57 libicu63 libisl15 libisl19 libitm1 libjs-mathjax liblapack3 liblsan0 libltdl7 libmpc3 libmpfr4 libmpfr6 libmpich-dev libmpich12 libmpx2 libnuma1 libpciaccess0 libquadmath0 libstdc++-6-dev libstdc++-8-dev libtsan0 libubsan0 libubsan1 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxml2 linux-libc-dev manpages manpages-dev mpich ocl-icd-libopencl1 sgml-base xml-core 0 upgraded, 0 newly installed, 83 to remove and 0 not upgraded. After this operation, 763 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 ... 41050 files and directories currently installed.) Removing g++-6 (6.3.0-18+deb9u1) ... Removing gfortran-6 (6.3.0-18+deb9u1) ... Removing gcc-6 (6.3.0-18+deb9u1) ... Removing libmpich-dev:amd64 (3.3-3) ... Removing g++ (4:8.3.0-1) ... Removing gfortran (4:8.3.0-1) ... Removing cpp-6 (6.3.0-18+deb9u1) ... Removing gcc (4:8.3.0-1) ... Removing gromacs (2019.1-1) ... Removing gromacs-data (2019.1-1) ... Removing libjs-mathjax (2.7.4+dfsg-1) ... Removing fonts-mathjax (2.7.4+dfsg-1) ... Removing g++-8 (8.3.0-6) ... Removing libstdc++-6-dev:amd64 (6.3.0-18+deb9u1) ... Removing libgfortran-6-dev:amd64 (6.3.0-18+deb9u1) ... Removing libgcc-6-dev:amd64 (6.3.0-18+deb9u1) ... Removing libubsan0:amd64 (7.4.0-6) ... Removing libcilkrts5:amd64 (7.4.0-6) ... Removing gcc-7-base:amd64 (7.4.0-6) ... Removing gfortran-8 (8.3.0-6) ... Removing gromacs-mpich (2019.1-1) ... Removing mpich (3.3-3) ... Removing hwloc-nox (1.11.12-3) ... Removing libasan3:amd64 (6.3.0-18+deb9u1) ... Removing libstdc++-8-dev:amd64 (8.3.0-6) ... Removing libgfortran-8-dev:amd64 (8.3.0-6) ... Removing libblas-common (3.7.0-2) ... Removing libgromacs2 (2016.1-2) ... Removing libgromacs4:amd64 (2019.1-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libblas3:amd64 (3.8.0-2) ... Removing libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Removing libxcb1:amd64 (1.13.1-2) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.9.1-2+deb10u1) ... Removing libc6-dev:amd64 (2.28-10+deb10u1) ... Removing libc-dev-bin (2.28-10+deb10u1) ... Removing libcr-dev (0.8.5-2.3+b1) ... Removing libcr0 (0.8.5-2.3+b1) ... Removing libfftw3-double3:amd64 (3.3.8-2) ... Removing libfftw3-single3:amd64 (3.3.8-2) ... Removing libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing libmpich12:amd64 (3.3-3) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libhwloc-plugins:amd64 (1.11.12-3) ... Removing libhwloc5:amd64 (1.11.12-3) ... Removing libicu57:amd64 (57.1-6+deb9u4) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... Removing libisl15:amd64 (0.18-1) ... Removing libltdl7:amd64 (2.4.6-9) ... Removing libmpfr4:amd64 (3.1.5-1) ... Removing libnuma1:amd64 (2.0.12-1) ... Removing libpciaccess0:amd64 (0.14-1) ... Removing libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... Removing linux-libc-dev:amd64 (4.19.249-2) ... Removing manpages-dev (4.16-2) ... Removing manpages (4.16-2) ... Removing ocl-icd-libopencl1:amd64 (2.2.12-2) ... Removing xml-core (0.18+nmu1) ... Removing sgml-base (1.29) ... Removing gcc-8 (8.3.0-6) ... Removing binutils (2.31.1-16) ... Removing binutils-x86-64-linux-gnu (2.31.1-16) ... Removing libbinutils:amd64 (2.31.1-16) ... Removing binutils-common:amd64 (2.31.1-16) ... Removing cpp (4:8.3.0-1) ... Removing cpp-8 (8.3.0-6) ... Removing libgcc-8-dev:amd64 (8.3.0-6) ... Removing libasan5:amd64 (8.3.0-6) ... Removing libatomic1:amd64 (8.3.0-6) ... Removing libcc1-0:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libisl19:amd64 (0.20-2) ... Removing libitm1:amd64 (8.3.0-6) ... Removing liblsan0:amd64 (8.3.0-6) ... Removing libmpc3:amd64 (1.1.0-1) ... Removing libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libquadmath0:amd64 (8.3.0-6) ... Removing libtsan0:amd64 (8.3.0-6) ... Removing libubsan1:amd64 (8.3.0-6) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 1m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cpp', 'cpp-6', 'cpp-8', 'fonts-mathjax', 'g++-', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gfortran', 'gfortran-6', 'gfortran-8', 'gromacs', 'gromacs-data', 'hwloc-nox', 'libasan3:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcr-dev', 'libcr0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgfortran-6-dev:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs2', 'libgromacs4:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpich-dev:amd64', 'libmpich12:amd64', 'libmpx2:amd64', 'libnuma1:amd64', 'libpciaccess0:amd64', 'libquadmath0:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxml2:amd64', 'linux-libc-dev:amd64', 'manpages', 'manpages-dev', 'mpich', 'ocl-icd-libopencl1:amd64', 'sgml-base', 'xml-core', 'gromacs-mpich'] 1m24.9s INFO: Running scripts post_remove 1m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_remove_exceptions'] 1m24.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_remove_exceptions'] 1m24.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cpp', 'cpp-6', 'cpp-8', 'fonts-mathjax', 'g++', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gfortran', 'gfortran-6', 'gfortran-8', 'gromacs', 'gromacs-data', 'hwloc-nox', 'libasan3:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcr-dev', 'libcr0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgfortran-6-dev:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs2', 'libgromacs4:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpich-dev:amd64', 'libmpich12:amd64', 'libmpx2:amd64', 'libnuma1:amd64', 'libpciaccess0:amd64', 'libquadmath0:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxml2:amd64', 'linux-libc-dev:amd64', 'manpages', 'manpages-dev', 'mpich', 'ocl-icd-libopencl1:amd64', 'sgml-base', 'xml-core'] 1m25.0s DUMP: dpkg: warning: ignoring request to remove binutils which isn't installed dpkg: warning: ignoring request to remove binutils-common which isn't installed dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-6 which isn't installed dpkg: warning: ignoring request to remove cpp-8 which isn't installed dpkg: warning: ignoring request to remove fonts-mathjax which isn't installed dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-6 which isn't installed dpkg: warning: ignoring request to remove g++-8 which isn't installed dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-6 which isn't installed dpkg: warning: ignoring request to remove gcc-7-base which isn't installed dpkg: warning: ignoring request to remove gcc-8 which isn't installed dpkg: warning: ignoring request to remove gfortran which isn't installed dpkg: warning: ignoring request to remove gfortran-6 which isn't installed dpkg: warning: ignoring request to remove gfortran-8 which isn't installed dpkg: warning: ignoring request to remove gromacs which isn't installed dpkg: warning: ignoring request to remove gromacs-data which isn't installed dpkg: warning: ignoring request to remove hwloc-nox which isn't installed dpkg: warning: ignoring request to remove libasan3 which isn't installed dpkg: warning: ignoring request to remove libasan5 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas-common which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed dpkg: warning: ignoring request to remove libcilkrts5 which isn't installed dpkg: warning: ignoring request to remove libcr-dev which isn't installed dpkg: warning: ignoring request to remove libcr0 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 libgcc-6-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-8-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran-6-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran-8-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran3 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 libgromacs2 which isn't installed dpkg: warning: ignoring request to remove libgromacs4 which isn't installed dpkg: warning: ignoring request to remove libhwloc-plugins which isn't installed dpkg: warning: ignoring request to remove libhwloc5 which isn't installed dpkg: warning: ignoring request to remove libicu57 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libisl15 which isn't installed dpkg: warning: ignoring request to remove libisl19 which isn't installed dpkg: warning: ignoring request to remove libitm1 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 liblsan0 which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpfr4 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed (Reading database ... 5009 files and directories currently installed.) Purging configuration files for libmpich-dev:amd64 (3.3-3) ... dpkg: warning: ignoring request to remove libmpich12 which isn't installed dpkg: warning: ignoring request to remove libmpx2 which isn't installed dpkg: warning: ignoring request to remove libnuma1 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libstdc++-6-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-8-dev which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 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 libxml2 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove manpages which isn't installed dpkg: warning: ignoring request to remove manpages-dev which isn't installed dpkg: warning: ignoring request to remove mpich which isn't installed dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed Purging configuration files for sgml-base (1.29) ... Purging configuration files for xml-core (0.18+nmu1) ... 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'cpp', 'cpp-6', 'cpp-8', 'fonts-mathjax', 'g++', 'g++-6', 'g++-8', 'gcc', 'gcc-6', 'gcc-7-base:amd64', 'gcc-8', 'gfortran', 'gfortran-6', 'gfortran-8', 'gromacs', 'gromacs-data', 'hwloc-nox', 'libasan3:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcilkrts5:amd64', 'libcr-dev', 'libcr0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libgcc-6-dev:amd64', 'libgcc-8-dev:amd64', 'libgfortran-6-dev:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgromacs2', 'libgromacs4:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libisl15:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjs-mathjax', 'liblapack3:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmpc3:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpich-dev:amd64', 'libmpich12:amd64', 'libmpx2:amd64', 'libnuma1:amd64', 'libpciaccess0:amd64', 'libquadmath0:amd64', 'libstdc++-6-dev:amd64', 'libstdc++-8-dev:amd64', 'libtsan0:amd64', 'libubsan0:amd64', 'libubsan1:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxml2:amd64', 'linux-libc-dev:amd64', 'manpages', 'manpages-dev', 'mpich', 'ocl-icd-libopencl1:amd64', 'sgml-base', 'xml-core'] 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', 'gromacs-mpich'] 1m25.0s DUMP: dpkg: warning: ignoring request to remove gromacs-mpich which isn't installed 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', 'gromacs-mpich'] 1m25.0s INFO: Running scripts post_purge 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_purge_exceptions'] 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_purge_exceptions'] 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', '--pending'] 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--purge', '--pending'] 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--remove', '--pending'] 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg', '--remove', '--pending'] 1m25.0s INFO: Running scripts post_test 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_test_exceptions'] 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'tmp/scripts/post_test_exceptions'] 1m25.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m25.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m25.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg-divert', '--list'] 1m25.2s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 1m25.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'dpkg-divert', '--list'] 1m25.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'clean'] 1m25.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpes38jypt', 'apt-get', 'clean'] 1m25.2s DEBUG: Recording chroot state 1m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/shm'] 1m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/shm'] 1m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/console'] 1m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/console'] 1m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/ptmx'] 1m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/ptmx'] 1m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts'] 1m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/dev/pts'] 1m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/proc'] 1m25.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpes38jypt/proc'] 1m25.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m25.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpes38jypt'] 1m25.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpes38jypt 1m25.9s INFO: PASS: Upgrading between Debian distributions. 1m25.9s INFO: PASS: All tests. 1m25.9s INFO: piuparts run ends. ret=0 End: 2023-02-06 08:58:32 GMT