Start: 2024-01-15 05:51:00 GMT [bullseye] Package: python3-cobra Source: python-cobra Version: 0.21.0-1 Installed-Size: 609 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-appdirs (>= 1.4), python3-appdirs (<< 2), python3-depinfo, python3-diskcache, python3-future, python3-httpx, python3-numpy, python3-optlang, python3-pandas (>= 0.17.0), python3-pydantic, python3-rich, python3-ruamel.yaml, python3-six, python3-swiglpk (>= 4.65.1), python3:any, python-cobra-data (= 0.21.0-1), python3-simplejson, python3-tabulate, python3-sbml5 Suggests: python3-matplotlib, qsopt-ex Description: constraint-based modeling of biological networks with Python 3 Homepage: https://opencobra.github.io/cobrapy/ Description-md5: 0052f98776eccb61924a15b5d6618e25 Section: python Priority: optional Filename: pool/main/p/python-cobra/python3-cobra_0.21.0-1_amd64.deb Size: 113608 MD5sum: 9d2a3ce867c8ab2503d255b039182238 SHA256: 395df400c2278a809c897969a1eb2bf05af1e2a1c389211dbcc173cd8e88b295 [bullseye-next] Package: python3-cobra Source: python-cobra Version: 0.21.0-1 Installed-Size: 609 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-appdirs (>= 1.4), python3-appdirs (<< 2), python3-depinfo, python3-diskcache, python3-future, python3-httpx, python3-numpy, python3-optlang, python3-pandas (>= 0.17.0), python3-pydantic, python3-rich, python3-ruamel.yaml, python3-six, python3-swiglpk (>= 4.65.1), python3:any, python-cobra-data (= 0.21.0-1), python3-simplejson, python3-tabulate, python3-sbml5 Suggests: python3-matplotlib, qsopt-ex Description: constraint-based modeling of biological networks with Python 3 Homepage: https://opencobra.github.io/cobrapy/ Description-md5: 0052f98776eccb61924a15b5d6618e25 Section: python Priority: optional Filename: pool/main/p/python-cobra/python3-cobra_0.21.0-1_amd64.deb Size: 113608 MD5sum: 9d2a3ce867c8ab2503d255b039182238 SHA256: 395df400c2278a809c897969a1eb2bf05af1e2a1c389211dbcc173cd8e88b295 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt python3-cobra=0.21.0-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye -d bullseye-next -B /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat --apt python3-cobra=0.21.0-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-27-amd64 #1 SMP Debian 5.10.205-2 (2023-12-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp0r8eyugz 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp0r8eyugz 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/proc'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/proc'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/ptmx'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/ptmx'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/console'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/console'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/shm'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/shm'] 0m1.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m1.4s DEBUG: Created policy-rc.d and chmodded it. 0m1.4s DEBUG: Created resolv.conf. 0m1.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp0r8eyugz/tmp/scripts/ 0m1.4s INFO: Running scripts post_chroot_unpack 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'update'] 0m2.3s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'update'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s DUMP: cd994be14815166bf41ad7cebd6f56fc - 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s INFO: Running scripts post_setup 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_dummy_users'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_dummy_users'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u6 install ok installed libc6:amd64 libc6 2.31-13+deb11u6 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u2 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u10 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bullseye2next/reference-chroot-metadata.dat 0m4.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m4.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m4.4s INFO: Running scripts is_testable 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s INFO: Running scripts pre_test 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_test_root_password'] 0m4.5s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_test_root_password'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'show', '--no-all-versions', 'python3-cobra'] 0m4.7s DUMP: Package: python3-cobra Source: python-cobra Version: 0.21.0-1 Installed-Size: 609 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-appdirs (>= 1.4), python3-appdirs (<< 2), python3-depinfo, python3-diskcache, python3-future, python3-httpx, python3-numpy, python3-optlang, python3-pandas (>= 0.17.0), python3-pydantic, python3-rich, python3-ruamel.yaml, python3-six, python3-swiglpk (>= 4.65.1), python3:any, python-cobra-data (= 0.21.0-1), python3-simplejson, python3-tabulate, python3-sbml5 Suggests: python3-matplotlib, qsopt-ex Description-en: constraint-based modeling of biological networks with Python 3 COnstraint-Based Reconstruction and Analysis (COBRA) methods are widely used for genome-scale modeling of metabolic networks in both prokaryotes and eukaryotes. COBRApy is a constraint-based modeling package that is designed to accommodate the biological complexity of the next generation of COBRA models and provides access to commonly used COBRA methods, such as flux balance analysis, flux variability analysis, and gene deletion analyses. Description-md5: 0052f98776eccb61924a15b5d6618e25 Homepage: https://opencobra.github.io/cobrapy/ Section: python Priority: optional Filename: pool/main/p/python-cobra/python3-cobra_0.21.0-1_amd64.deb Size: 113608 MD5sum: 9d2a3ce867c8ab2503d255b039182238 SHA256: 395df400c2278a809c897969a1eb2bf05af1e2a1c389211dbcc173cd8e88b295 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'show', '--no-all-versions', 'python3-cobra'] 0m4.7s INFO: apt-cache knows about the following packages: python3-cobra 0m4.7s INFO: Running scripts pre_install 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m4.7s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m4.8s DUMP: python3-cobra: Installed: (none) Candidate: 0.21.0-1 Version table: 0.21.0-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra'] 0m31.6s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates libamd2 libblas3 libcolamd2 libexpat1 libgfortran5 libglpk40 libicu67 liblapack3 libltdl7 libmpdec3 libncursesw6 libpython3-stdlib libpython3.9 libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libsuitesparseconfig5 libxml2 media-types openssl python-cobra-data python3 python3-appdirs python3-certifi python3-colorama python3-commonmark python3-dateutil python3-depinfo python3-diskcache python3-future python3-h11 python3-httpcore python3-httpx python3-idna python3-lib2to3 python3-minimal python3-mpmath python3-numpy python3-optlang python3-pandas python3-pandas-lib python3-pkg-resources python3-pydantic python3-pygments python3-rfc3986 python3-rich python3-ruamel.yaml python3-ruamel.yaml.clib python3-sbml5 python3-simplejson python3-six python3-sniffio python3-swiglpk python3-sympy python3-tabulate python3-typing-extensions python3-tz python3.9 python3.9-minimal readline-common swig swig4.0 Suggested packages: libiodbc2-dev default-libmysqlclient-dev python3-doc python3-tk python3-venv python3-matplotlib qsopt-ex python-future-doc python-mpmath-doc python3-gmpy2 gcc gfortran python-numpy-doc python3-dev python3-numpy-dbg python3-pytest python-pandas-doc python3-statsmodels python3-setuptools python-pygments-doc ttf-bitstream-vera texlive-fonts-extra dvipng python-sympy-doc python3.9-venv python3.9-doc binutils binfmt-support readline-doc swig-doc swig-examples swig4.0-examples swig4.0-doc Recommended packages: libgpm2 python3-scipy python3-matplotlib python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-xlwt python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba python3-pil The following NEW packages will be installed: ca-certificates libamd2 libblas3 libcolamd2 libexpat1 libgfortran5 libglpk40 libicu67 liblapack3 libltdl7 libmpdec3 libncursesw6 libpython3-stdlib libpython3.9 libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libsuitesparseconfig5 libxml2 media-types openssl python-cobra-data python3 python3-appdirs python3-certifi python3-cobra python3-colorama python3-commonmark python3-dateutil python3-depinfo python3-diskcache python3-future python3-h11 python3-httpcore python3-httpx python3-idna python3-lib2to3 python3-minimal python3-mpmath python3-numpy python3-optlang python3-pandas python3-pandas-lib python3-pkg-resources python3-pydantic python3-pygments python3-rfc3986 python3-rich python3-ruamel.yaml python3-ruamel.yaml.clib python3-sbml5 python3-simplejson python3-six python3-sniffio python3-swiglpk python3-sympy python3-tabulate python3-typing-extensions python3-tz python3.9 python3.9-minimal readline-common swig swig4.0 0 upgraded, 66 newly installed, 0 to remove and 0 not upgraded. Need to get 44.9 MB of archives. After this operation, 215 MB of additional disk space will be used. 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libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1w-0+deb11u1 [859 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 libsuitesparseconfig5 amd64 1:5.8.1+dfsg-2 [23.0 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libamd2 amd64 1:5.8.1+dfsg-2 [35.5 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libcolamd2 amd64 1:5.8.1+dfsg-2 [32.1 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 libltdl7 amd64 2.4.6-15 [391 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 libglpk40 amd64 5.0-1 [400 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3+deb11u1 [2166 kB] Get:27 http://deb.debian.org/debian bullseye/main amd64 libpython3.9 amd64 3.9.2-1 [1691 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 python-cobra-data all 0.21.0-1 [1507 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 python3-appdirs all 1.4.4-1 [12.7 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 python3-certifi all 2020.6.20-1 [151 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 python3-depinfo amd64 1.6.0-1 [5920 B] Get:34 http://deb.debian.org/debian bullseye/main amd64 python3-diskcache all 5.2.1-2 [544 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 python3-future all 0.18.2-5 [349 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 python3-h11 all 0.12.0-1 [47.9 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 python3-sniffio all 1.1.0-1 [6216 B] Get:39 http://deb.debian.org/debian bullseye/main amd64 python3-httpcore all 0.12.3-1 [30.3 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 python3-idna all 2.10-1 [37.4 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 python3-rfc3986 all 1.4.0-3 [21.8 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 python3-httpx all 0.16.1-1 [65.5 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 python3-swiglpk amd64 4.65.1-1 [61.7 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 python3-mpmath all 1.2.1-1 [418 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 python3-sympy all 1.7.1-3 [4031 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 python3-optlang all 1.4.4-2 [67.7 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 python3-dateutil all 2.8.1-6 [79.2 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 python3-tz all 2021.1-1 [34.8 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 python3-pandas-lib amd64 1.1.5+dfsg-2 [3287 kB] Get:52 http://deb.debian.org/debian bullseye/main amd64 python3-pandas all 1.1.5+dfsg-2 [2096 kB] Get:53 http://deb.debian.org/debian bullseye/main amd64 python3-pydantic all 1.7.4-1 [119 kB] Get:54 http://deb.debian.org/debian bullseye/main amd64 python3-colorama all 0.4.4-1 [28.5 kB] Get:55 http://deb.debian.org/debian bullseye/main amd64 python3-commonmark all 0.9.1-3 [44.9 kB] Get:56 http://deb.debian.org/debian bullseye/main amd64 python3-pygments all 2.7.1+dfsg-2.1 [657 kB] Get:57 http://deb.debian.org/debian bullseye/main amd64 python3-typing-extensions all 3.7.4.3-1 [29.8 kB] Get:58 http://deb.debian.org/debian bullseye/main amd64 python3-rich all 9.11.0-1 [150 kB] Get:59 http://deb.debian.org/debian bullseye/main amd64 python3-ruamel.yaml.clib amd64 0.2.2-1+b2 [132 kB] Get:60 http://deb.debian.org/debian bullseye/main amd64 python3-ruamel.yaml all 0.16.12-2 [110 kB] Get:61 http://deb.debian.org/debian bullseye/main amd64 python3-simplejson amd64 3.17.2-1 [61.7 kB] Get:62 http://deb.debian.org/debian bullseye/main amd64 python3-tabulate all 0.8.7-0.1 [33.8 kB] Get:63 http://deb.debian.org/debian bullseye/main amd64 swig4.0 amd64 4.0.2-1 [1377 kB] Get:64 http://deb.debian.org/debian bullseye/main amd64 swig all 4.0.2-1 [330 kB] Get:65 http://deb.debian.org/debian bullseye/main amd64 python3-sbml5 amd64 5.19.0+dfsg-1 [3421 kB] Get:66 http://deb.debian.org/debian bullseye/main amd64 python3-cobra amd64 0.21.0-1 [114 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 44.9 MB in 1s (76.6 MB/s) Selecting previously unselected package libpython3.9-minimal: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 ... 6666 files and directories currently installed.) Preparing to unpack .../libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.10-2+deb11u5_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2+deb11u5) ... Selecting previously unselected package python3.9-minimal. 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Selecting previously unselected package python3-diskcache. Preparing to unpack .../20-python3-diskcache_5.2.1-2_all.deb ... Unpacking python3-diskcache (5.2.1-2) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../21-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package python3-future. Preparing to unpack .../22-python3-future_0.18.2-5_all.deb ... Unpacking python3-future (0.18.2-5) ... Selecting previously unselected package python3-h11. Preparing to unpack .../23-python3-h11_0.12.0-1_all.deb ... Unpacking python3-h11 (0.12.0-1) ... Selecting previously unselected package python3-sniffio. Preparing to unpack .../24-python3-sniffio_1.1.0-1_all.deb ... Unpacking python3-sniffio (1.1.0-1) ... Selecting previously unselected package python3-httpcore. Preparing to unpack .../25-python3-httpcore_0.12.3-1_all.deb ... Unpacking python3-httpcore (0.12.3-1) ... 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Preparing to unpack .../32-python3-mpmath_1.2.1-1_all.deb ... Unpacking python3-mpmath (1.2.1-1) ... Selecting previously unselected package python3-sympy. Preparing to unpack .../33-python3-sympy_1.7.1-3_all.deb ... Unpacking python3-sympy (1.7.1-3) ... Selecting previously unselected package python3-optlang. Preparing to unpack .../34-python3-optlang_1.4.4-2_all.deb ... Unpacking python3-optlang (1.4.4-2) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../35-python3-dateutil_2.8.1-6_all.deb ... Unpacking python3-dateutil (2.8.1-6) ... Selecting previously unselected package python3-tz. Preparing to unpack .../36-python3-tz_2021.1-1_all.deb ... Unpacking python3-tz (2021.1-1) ... Selecting previously unselected package python3-pandas-lib:amd64. Preparing to unpack .../37-python3-pandas-lib_1.1.5+dfsg-2_amd64.deb ... Unpacking python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../38-python3-pandas_1.1.5+dfsg-2_all.deb ... Unpacking python3-pandas (1.1.5+dfsg-2) ... Selecting previously unselected package python3-pydantic. Preparing to unpack .../39-python3-pydantic_1.7.4-1_all.deb ... Unpacking python3-pydantic (1.7.4-1) ... Selecting previously unselected package python3-colorama. Preparing to unpack .../40-python3-colorama_0.4.4-1_all.deb ... Unpacking python3-colorama (0.4.4-1) ... Selecting previously unselected package python3-commonmark. Preparing to unpack .../41-python3-commonmark_0.9.1-3_all.deb ... Unpacking python3-commonmark (0.9.1-3) ... Selecting previously unselected package python3-pygments. Preparing to unpack .../42-python3-pygments_2.7.1+dfsg-2.1_all.deb ... Unpacking python3-pygments (2.7.1+dfsg-2.1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../43-python3-typing-extensions_3.7.4.3-1_all.deb ... Unpacking python3-typing-extensions (3.7.4.3-1) ... Selecting previously unselected package python3-rich. Preparing to unpack .../44-python3-rich_9.11.0-1_all.deb ... Unpacking python3-rich (9.11.0-1) ... Selecting previously unselected package python3-ruamel.yaml.clib:amd64. Preparing to unpack .../45-python3-ruamel.yaml.clib_0.2.2-1+b2_amd64.deb ... Unpacking python3-ruamel.yaml.clib:amd64 (0.2.2-1+b2) ... Selecting previously unselected package python3-ruamel.yaml. Preparing to unpack .../46-python3-ruamel.yaml_0.16.12-2_all.deb ... Unpacking python3-ruamel.yaml (0.16.12-2) ... Selecting previously unselected package python3-simplejson. Preparing to unpack .../47-python3-simplejson_3.17.2-1_amd64.deb ... Unpacking python3-simplejson (3.17.2-1) ... Selecting previously unselected package python3-tabulate. Preparing to unpack .../48-python3-tabulate_0.8.7-0.1_all.deb ... Unpacking python3-tabulate (0.8.7-0.1) ... Selecting previously unselected package swig4.0. Preparing to unpack .../49-swig4.0_4.0.2-1_amd64.deb ... Unpacking swig4.0 (4.0.2-1) ... Selecting previously unselected package swig. Preparing to unpack .../50-swig_4.0.2-1_all.deb ... Unpacking swig (4.0.2-1) ... Selecting previously unselected package python3-sbml5. Preparing to unpack .../51-python3-sbml5_5.19.0+dfsg-1_amd64.deb ... Unpacking python3-sbml5 (5.19.0+dfsg-1) ... Selecting previously unselected package python3-cobra. Preparing to unpack .../52-python3-cobra_0.21.0-1_amd64.deb ... Unpacking python3-cobra (0.21.0-1) ... Setting up media-types (4.0.0) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libsqlite3-0:amd64 (3.34.1-3) ... Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... 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 libquadmath0:amd64 (10.2.1-6) ... Setting up libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Setting up libltdl7:amd64 (2.4.6-15) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up swig4.0 (4.0.2-1) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up python-cobra-data (0.21.0-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Setting up libsuitesparseconfig5:amd64 (1:5.8.1+dfsg-2) ... Setting up libamd2:amd64 (1:5.8.1+dfsg-2) ... Setting up liblapack3:amd64 (3.9.0-3+deb11u1) ... 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 swig (4.0.2-1) ... Setting up libcolamd2:amd64 (1:5.8.1+dfsg-2) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libglpk40:amd64 (5.0-1) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up libpython3.9:amd64 (3.9.2-1) ... Setting up python3.9 (3.9.2-1) ... Setting up python3 (3.9.2-3) ... Setting up python3-sbml5 (5.19.0+dfsg-1) ... Setting up python3-tz (2021.1-1) ... Setting up python3-six (1.16.0-2) ... Setting up python3-simplejson (3.17.2-1) ... Setting up python3-certifi (2020.6.20-1) ... Setting up python3-pydantic (1.7.4-1) ... Setting up python3-idna (2.10-1) ... Setting up python3-h11 (0.12.0-1) ... Setting up python3-typing-extensions (3.7.4.3-1) ... Setting up python3-dateutil (2.8.1-6) ... Setting up python3-mpmath (1.2.1-1) ... Setting up python3-diskcache (5.2.1-2) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-appdirs (1.4.4-1) ... Setting up python3-swiglpk (4.65.1-1) ... Setting up python3-commonmark (0.9.1-3) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-sniffio (1.1.0-1) ... Setting up python3-sympy (1.7.1-3) ... Setting up python3-colorama (0.4.4-1) ... Setting up python3-ruamel.yaml.clib:amd64 (0.2.2-1+b2) ... Setting up python3-tabulate (0.8.7-0.1) ... Setting up python3-pygments (2.7.1+dfsg-2.1) ... Setting up python3-rfc3986 (1.4.0-3) ... Setting up python3-depinfo (1.6.0-1) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-ruamel.yaml (0.16.12-2) ... Setting up python3-future (0.18.2-5) ... update-alternatives: using /usr/bin/python3-futurize to provide /usr/bin/futurize (futurize) in auto mode update-alternatives: using /usr/bin/python3-pasteurize to provide /usr/bin/pasteurize (pasteurize) in auto mode Setting up python3-optlang (1.4.4-2) ... /usr/lib/python3/dist-packages/slow_tests/test_miplib_cplex_interface.py:65: SyntaxWarning: "is not" with a literal. Did you mean "!="? if status is not "time_limit": /usr/lib/python3/dist-packages/slow_tests/test_miplib_cplex_interface.py:68: SyntaxWarning: "is" with a literal. Did you mean "=="? if status is "optimal": /usr/lib/python3/dist-packages/slow_tests/test_miplib_glpk_interface.py:58: SyntaxWarning: "is not" with a literal. Did you mean "!="? if status is not "time_limit": /usr/lib/python3/dist-packages/slow_tests/test_miplib_glpk_interface.py:61: SyntaxWarning: "is" with a literal. Did you mean "=="? if status is "optimal": /usr/lib/python3/dist-packages/slow_tests/test_miplib_gurobi_interface.py:65: SyntaxWarning: "is not" with a literal. Did you mean "!="? if status is not "time_limit": /usr/lib/python3/dist-packages/slow_tests/test_miplib_gurobi_interface.py:68: SyntaxWarning: "is" with a literal. Did you mean "=="? if status is "optimal": Setting up python3-httpcore (0.12.3-1) ... Setting up python3-rich (9.11.0-1) ... Setting up python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Setting up python3-pandas (1.1.5+dfsg-2) ... Setting up python3-httpx (0.16.1-1) ... Setting up python3-cobra (0.21.0-1) ... /usr/lib/python3/dist-packages/cobra/core/dictlist.py:215: SyntaxWarning: "is" with a literal. Did you mean "=="? if current_length is 0: Processing triggers for libc-bin (2.31-13+deb11u6) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra'] 0m31.6s INFO: Running scripts post_install 0m31.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m31.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m31.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m32.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m32.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp0r8eyugz to bullseye-next 0m32.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main deb http://security.debian.org bullseye-security main deb http://deb.debian.org/debian/ bullseye-updates main deb http://deb.debian.org/debian/ bullseye-proposed-updates main 0m32.4s INFO: Running scripts pre_distupgrade 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_exceptions'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_exceptions'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'update'] 0m33.8s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Get:2 http://deb.debian.org/debian bullseye-updates InRelease [44.1 kB] Get:3 http://security.debian.org bullseye-security InRelease [48.4 kB] Get:4 http://deb.debian.org/debian bullseye-proposed-updates InRelease [54.0 kB] Get:5 http://security.debian.org bullseye-security/main amd64 Packages [265 kB] Get:6 http://security.debian.org bullseye-security/main Translation-en [171 kB] Get:7 http://deb.debian.org/debian bullseye-updates/main amd64 Packages [18.8 kB] Get:8 http://deb.debian.org/debian bullseye-updates/main Translation-en [10.9 kB] Get:9 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages [136 kB] Get:10 http://deb.debian.org/debian bullseye-proposed-updates/main Translation-en [83.0 kB] Fetched 831 kB in 1s (1211 kB/s) Reading package lists... 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'update'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-yf', 'dist-upgrade'] 0m36.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 libgnutls30 perl-base tzdata 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6907 kB of archives. After this operation, 2048 B of additional disk space will be used. Get:1 http://security.debian.org bullseye-security/main amd64 libc6 amd64 2.31-13+deb11u7 [2823 kB] Get:2 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 perl-base amd64 5.32.1-4+deb11u3 [1628 kB] Get:3 http://security.debian.org bullseye-security/main amd64 libc-bin amd64 2.31-13+deb11u7 [829 kB] Get:4 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 libgnutls30 amd64 3.7.1-5+deb11u4 [1340 kB] Get:5 http://deb.debian.org/debian bullseye-updates/main amd64 tzdata all 2021a-1+deb11u11 [287 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6907 kB in 0s (77.2 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 13523 files and directories currently installed.) Preparing to unpack .../perl-base_5.32.1-4+deb11u3_amd64.deb ... Unpacking perl-base (5.32.1-4+deb11u3) over (5.32.1-4+deb11u2) ... Setting up perl-base (5.32.1-4+deb11u3) ... (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 ... 13523 files and directories currently installed.) Preparing to unpack .../libc-bin_2.31-13+deb11u7_amd64.deb ... Unpacking libc-bin (2.31-13+deb11u7) over (2.31-13+deb11u6) ... Setting up libc-bin (2.31-13+deb11u7) ... (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 ... 13523 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.1-5+deb11u4_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.1-5+deb11u4) over (3.7.1-5+deb11u3) ... Setting up libgnutls30:amd64 (3.7.1-5+deb11u4) ... (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 ... 13523 files and directories currently installed.) Preparing to unpack .../tzdata_2021a-1+deb11u11_all.deb ... Unpacking tzdata (2021a-1+deb11u11) over (2021a-1+deb11u10) ... Setting up tzdata (2021a-1+deb11u11) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Jan 15 05:51:36 UTC 2024. Universal Time is now: Mon Jan 15 05:51:36 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Processing triggers for libc-bin (2.31-13+deb11u7) ... 0m36.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-yf', 'dist-upgrade'] 0m36.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m37.1s DUMP: 38b0333d3b63dd06fc5b5c2040bde2fd - 0m37.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m37.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'show', '--no-all-versions', 'python3-cobra'] 0m37.3s DUMP: Package: python3-cobra Source: python-cobra Version: 0.21.0-1 Installed-Size: 609 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-appdirs (>= 1.4), python3-appdirs (<< 2), python3-depinfo, python3-diskcache, python3-future, python3-httpx, python3-numpy, python3-optlang, python3-pandas (>= 0.17.0), python3-pydantic, python3-rich, python3-ruamel.yaml, python3-six, python3-swiglpk (>= 4.65.1), python3:any, python-cobra-data (= 0.21.0-1), python3-simplejson, python3-tabulate, python3-sbml5 Suggests: python3-matplotlib, qsopt-ex Description-en: constraint-based modeling of biological networks with Python 3 COnstraint-Based Reconstruction and Analysis (COBRA) methods are widely used for genome-scale modeling of metabolic networks in both prokaryotes and eukaryotes. COBRApy is a constraint-based modeling package that is designed to accommodate the biological complexity of the next generation of COBRA models and provides access to commonly used COBRA methods, such as flux balance analysis, flux variability analysis, and gene deletion analyses. Description-md5: 0052f98776eccb61924a15b5d6618e25 Homepage: https://opencobra.github.io/cobrapy/ Section: python Priority: optional Filename: pool/main/p/python-cobra/python3-cobra_0.21.0-1_amd64.deb Size: 113608 MD5sum: 9d2a3ce867c8ab2503d255b039182238 SHA256: 395df400c2278a809c897969a1eb2bf05af1e2a1c389211dbcc173cd8e88b295 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'show', '--no-all-versions', 'python3-cobra'] 0m37.3s INFO: apt-cache knows about the following packages: python3-cobra 0m37.3s INFO: Running scripts pre_install 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m37.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m37.4s DUMP: python3-cobra: Installed: 0.21.0-1 Candidate: 0.21.0-1 Version table: *** 0.21.0-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra'] 0m37.7s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-cobra is already the newest version (0.21.0-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra'] 0m37.7s INFO: Running scripts post_install 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m37.7s INFO: Running scripts post_distupgrade 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m38.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m38.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m39.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m39.4s INFO: Running scripts pre_install 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_database-server'] 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_exceptions'] 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_extras'] 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m39.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye-proposed-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-proposed-updates,n=bullseye-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bullseye-updates/main amd64 Packages release v=11-updates,o=Debian,a=oldstable-updates,n=bullseye-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bullseye-security/main amd64 Packages release v=11,o=Debian,a=oldstable-security,n=bullseye-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m39.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy'] 0m39.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m39.6s DUMP: python3-cobra: Installed: 0.21.0-1 Candidate: 0.21.0-1 Version table: *** 0.21.0-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 100 /var/lib/dpkg/status 0m39.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-cache', 'policy', 'python3-cobra'] 0m39.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra=0.21.0-1'] 0m39.9s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-cobra is already the newest version (0.21.0-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', '-y', 'install', 'python3-cobra=0.21.0-1'] 0m39.9s INFO: Running scripts post_install 0m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_install_exceptions'] 0m40.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m40.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m40.9s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m40.9s INFO: /bin converted to /usr/bin by /usr merge 0m40.9s INFO: /lib converted to /usr/lib by /usr merge 0m40.9s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m40.9s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m40.9s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m40.9s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m40.9s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m40.9s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m40.9s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m40.9s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m40.9s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m40.9s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m40.9s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m40.9s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m40.9s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m40.9s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m40.9s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m40.9s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m40.9s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m40.9s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m40.9s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m40.9s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m40.9s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m40.9s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m40.9s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m40.9s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m40.9s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m40.9s INFO: /sbin converted to /usr/sbin by /usr merge 0m41.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', '-ac', '--ignore-obsolete'] 0m43.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', '-ac', '--ignore-obsolete'] 0m43.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m43.1s DUMP: 0.15.6 0m43.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m43.1s INFO: Running adequate version 0.15.6 now. 0m43.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'python3-cobra'] 0m43.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'python3-cobra'] 0m43.2s INFO: Running scripts pre_remove 0m43.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m43.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m43.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m43.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m43.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m45.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m45.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m45.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m45.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m45.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m45.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_exceptions'] 0m45.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/pre_remove_exceptions'] 0m45.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m45.6s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed ca-certificates ca-certificates 20210119 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libamd2:amd64 libamd2 1:5.8.1+dfsg-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblas3:amd64 libblas3 3.9.0-3+deb11u1 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u7 install ok installed libc6:amd64 libc6 2.31-13+deb11u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcolamd2:amd64 libcolamd2 1:5.8.1+dfsg-2 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libexpat1:amd64 libexpat1 2.2.10-2+deb11u5 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgfortran5:amd64 libgfortran5 10.2.1-6 install ok installed libglpk40:amd64 libglpk40 5.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libicu67:amd64 libicu67 67.1-7 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblapack3:amd64 liblapack3 3.9.0-3+deb11u1 install ok installed libltdl7:amd64 libltdl7 2.4.6-15 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libncursesw6:amd64 libncursesw6 6.2+20201114-2+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.9.2-3 install ok installed libpython3.9:amd64 libpython3.9 3.9.2-1 install ok installed libpython3.9-minimal:amd64 libpython3.9-minimal 3.9.2-1 install ok installed libpython3.9-stdlib:amd64 libpython3.9-stdlib 3.9.2-1 install ok installed libquadmath0:amd64 libquadmath0 10.2.1-6 install ok installed libreadline8:amd64 libreadline8 8.1-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.34.1-3 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsuitesparseconfig5:amd64 libsuitesparseconfig5 1:5.8.1+dfsg-2 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxml2:amd64 libxml2 2.9.10+dfsg-6.7+deb11u4 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed media-types media-types 4.0.0 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed openssl openssl 1.1.1w-0+deb11u1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed python-cobra-data python-cobra-data 0.21.0-1 install ok installed python3 python3 3.9.2-3 install ok installed python3-appdirs python3-appdirs 1.4.4-1 install ok installed python3-certifi python3-certifi 2020.6.20-1 install ok installed python3-cobra python3-cobra 0.21.0-1 install ok installed python3-colorama python3-colorama 0.4.4-1 install ok installed python3-commonmark python3-commonmark 0.9.1-3 install ok installed python3-dateutil python3-dateutil 2.8.1-6 install ok installed python3-depinfo python3-depinfo 1.6.0-1 install ok installed python3-diskcache python3-diskcache 5.2.1-2 install ok installed python3-future python3-future 0.18.2-5 install ok installed python3-h11 python3-h11 0.12.0-1 install ok installed python3-httpcore python3-httpcore 0.12.3-1 install ok installed python3-httpx python3-httpx 0.16.1-1 install ok installed python3-idna python3-idna 2.10-1 install ok installed python3-lib2to3 python3-lib2to3 3.9.2-1 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3-mpmath python3-mpmath 1.2.1-1 install ok installed python3-numpy python3-numpy 1:1.19.5-1 install ok installed python3-optlang python3-optlang 1.4.4-2 install ok installed python3-pandas python3-pandas 1.1.5+dfsg-2 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 1.1.5+dfsg-2 install ok installed python3-pkg-resources python3-pkg-resources 52.0.0-4 install ok installed python3-pydantic python3-pydantic 1.7.4-1 install ok installed python3-pygments python3-pygments 2.7.1+dfsg-2.1 install ok installed python3-rfc3986 python3-rfc3986 1.4.0-3 install ok installed python3-rich python3-rich 9.11.0-1 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.16.12-2 install ok installed python3-ruamel.yaml.clib:amd64 python3-ruamel.yaml.clib 0.2.2-1+b2 install ok installed python3-sbml5 python3-sbml5 5.19.0+dfsg-1 install ok installed python3-simplejson python3-simplejson 3.17.2-1 install ok installed python3-six python3-six 1.16.0-2 install ok installed python3-sniffio python3-sniffio 1.1.0-1 install ok installed python3-swiglpk python3-swiglpk 4.65.1-1 install ok installed python3-sympy python3-sympy 1.7.1-3 install ok installed python3-tabulate python3-tabulate 0.8.7-0.1 install ok installed python3-typing-extensions python3-typing-extensions 3.7.4.3-1 install ok installed python3-tz python3-tz 2021.1-1 install ok installed python3.9 python3.9 3.9.2-1 install ok installed python3.9-minimal python3.9-minimal 3.9.2-1 install ok installed readline-common readline-common 8.1-1 install ok installed sed sed 4.7-1 install ok installed swig swig 4.0.2-1 install ok installed swig4.0 swig4.0 4.0.2-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u11 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m45.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m45.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'remove', 'ca-certificates', 'libamd2:amd64', 'libblas3:amd64', 'libcolamd2:amd64', 'libexpat1:amd64', 'libgfortran5:amd64', 'libglpk40:amd64', 'libicu67:amd64', 'liblapack3:amd64', 'libltdl7:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.9:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libsuitesparseconfig5:amd64', 'libxml2:amd64', 'media-types', 'openssl', 'python-cobra-data', 'python3', 'python3-appdirs', 'python3-certifi', 'python3-colorama', 'python3-commonmark', 'python3-dateutil', 'python3-depinfo', 'python3-diskcache', 'python3-future', 'python3-h11', 'python3-httpcore', 'python3-httpx', 'python3-idna', 'python3-lib2to3', 'python3-minimal', 'python3-mpmath', 'python3-numpy', 'python3-optlang', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pydantic', 'python3-pygments', 'python3-rfc3986', 'python3-rich', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-sbml5', 'python3-simplejson', 'python3-six', 'python3-sniffio', 'python3-swiglpk', 'python3-sympy', 'python3-tabulate', 'python3-typing-extensions', 'python3-tz', 'python3.9', 'python3.9-minimal', 'readline-common', 'swig', 'swig4.0', 'python3-cobra'] 0m50.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates libamd2 libblas3 libcolamd2 libexpat1 libgfortran5 libglpk40 libicu67 liblapack3 libltdl7 libmpdec3 libncursesw6 libpython3-stdlib libpython3.9 libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 libsqlite3-0 libsuitesparseconfig5 libxml2 media-types openssl python-cobra-data python3 python3-appdirs python3-certifi python3-cobra python3-colorama python3-commonmark python3-dateutil python3-depinfo python3-diskcache python3-future python3-h11 python3-httpcore python3-httpx python3-idna python3-lib2to3 python3-minimal python3-mpmath python3-numpy python3-optlang python3-pandas python3-pandas-lib python3-pkg-resources python3-pydantic python3-pygments python3-rfc3986 python3-rich python3-ruamel.yaml python3-ruamel.yaml.clib python3-sbml5 python3-simplejson python3-six python3-sniffio python3-swiglpk python3-sympy python3-tabulate python3-typing-extensions python3-tz python3.9 python3.9-minimal readline-common swig swig4.0 0 upgraded, 0 newly installed, 66 to remove and 0 not upgraded. After this operation, 215 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 ... 13523 files and directories currently installed.) Removing python3-cobra (0.21.0-1) ... Removing python3-httpx (0.16.1-1) ... Removing python3-certifi (2020.6.20-1) ... Removing ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing python3-optlang (1.4.4-2) ... Removing python3-swiglpk (4.65.1-1) ... Removing libglpk40:amd64 (5.0-1) ... Removing libamd2:amd64 (1:5.8.1+dfsg-2) ... Removing python3-pandas (1.1.5+dfsg-2) ... Removing python3-pandas-lib:amd64 (1.1.5+dfsg-2) ... Removing python3-numpy (1:1.19.5-1) ... Removing liblapack3:amd64 (3.9.0-3+deb11u1) ... Removing libblas3:amd64 (3.9.0-3+deb11u1) ... Removing libcolamd2:amd64 (1:5.8.1+dfsg-2) ... Removing python3-simplejson (3.17.2-1) ... Removing python3-sympy (1.7.1-3) ... Removing python3-ruamel.yaml (0.16.12-2) ... Removing python3-ruamel.yaml.clib:amd64 (0.2.2-1+b2) ... Removing python3-dateutil (2.8.1-6) ... Removing python3-six (1.16.0-2) ... Removing python3-sbml5 (5.19.0+dfsg-1) ... Removing libpython3.9:amd64 (3.9.2-1) ... Removing libgfortran5:amd64 (10.2.1-6) ... Removing libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Removing libicu67:amd64 (67.1-7) ... Removing libltdl7:amd64 (2.4.6-15) ... Removing libquadmath0:amd64 (10.2.1-6) ... Removing libsuitesparseconfig5:amd64 (1:5.8.1+dfsg-2) ... Removing openssl (1.1.1w-0+deb11u1) ... Removing python-cobra-data (0.21.0-1) ... Removing python3-appdirs (1.4.4-1) ... Removing python3-rich (9.11.0-1) ... Removing python3-colorama (0.4.4-1) ... Removing python3-commonmark (0.9.1-3) ... Removing python3-depinfo (1.6.0-1) ... Removing python3-diskcache (5.2.1-2) ... Removing python3-future (0.18.2-5) ... Removing python3-httpcore (0.12.3-1) ... Removing python3-h11 (0.12.0-1) ... Removing python3-rfc3986 (1.4.0-3) ... Removing python3-idna (2.10-1) ... Removing python3-lib2to3 (3.9.2-1) ... Removing python3-mpmath (1.2.1-1) ... Removing python3-pygments (2.7.1+dfsg-2.1) ... Removing python3-pkg-resources (52.0.0-4) ... Removing python3-pydantic (1.7.4-1) ... Removing python3-sniffio (1.1.0-1) ... Removing python3-tabulate (0.8.7-0.1) ... Removing python3-typing-extensions (3.7.4.3-1) ... Removing python3-tz (2021.1-1) ... Removing swig (4.0.2-1) ... Removing swig4.0 (4.0.2-1) ... Removing python3 (3.9.2-3) ... Removing python3-minimal (3.9.2-3) ... Removing python3.9 (3.9.2-1) ... Removing python3.9-minimal (3.9.2-1) ... Removing libexpat1:amd64 (2.2.10-2+deb11u5) ... Removing libpython3-stdlib:amd64 (3.9.2-3) ... Removing libpython3.9-stdlib:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec3:amd64 (2.5.1-1) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libpython3.9-minimal:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.1-1) ... Removing libsqlite3-0:amd64 (3.34.1-3) ... Removing media-types (4.0.0) ... Removing readline-common (8.1-1) ... Processing triggers for libc-bin (2.31-13+deb11u7) ... 0m50.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'remove', 'ca-certificates', 'libamd2:amd64', 'libblas3:amd64', 'libcolamd2:amd64', 'libexpat1:amd64', 'libgfortran5:amd64', 'libglpk40:amd64', 'libicu67:amd64', 'liblapack3:amd64', 'libltdl7:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.9:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libsuitesparseconfig5:amd64', 'libxml2:amd64', 'media-types', 'openssl', 'python-cobra-data', 'python3', 'python3-appdirs', 'python3-certifi', 'python3-colorama', 'python3-commonmark', 'python3-dateutil', 'python3-depinfo', 'python3-diskcache', 'python3-future', 'python3-h11', 'python3-httpcore', 'python3-httpx', 'python3-idna', 'python3-lib2to3', 'python3-minimal', 'python3-mpmath', 'python3-numpy', 'python3-optlang', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pydantic', 'python3-pygments', 'python3-rfc3986', 'python3-rich', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-sbml5', 'python3-simplejson', 'python3-six', 'python3-sniffio', 'python3-swiglpk', 'python3-sympy', 'python3-tabulate', 'python3-typing-extensions', 'python3-tz', 'python3.9', 'python3.9-minimal', 'readline-common', 'swig', 'swig4.0', 'python3-cobra'] 0m50.4s INFO: Running scripts post_remove 0m50.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_remove_exceptions'] 0m50.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_remove_exceptions'] 0m50.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', 'ca-certificates', 'libamd2:amd64', 'libblas3:amd64', 'libcolamd2:amd64', 'libexpat1:amd64', 'libgfortran5:amd64', 'libglpk40:amd64', 'libicu67:amd64', 'liblapack3:amd64', 'libltdl7:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.9:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libsuitesparseconfig5:amd64', 'libxml2:amd64', 'media-types', 'openssl', 'python-cobra-data', 'python3', 'python3-appdirs', 'python3-certifi', 'python3-colorama', 'python3-commonmark', 'python3-dateutil', 'python3-depinfo', 'python3-diskcache', 'python3-future', 'python3-h11', 'python3-httpcore', 'python3-httpx', 'python3-idna', 'python3-lib2to3', 'python3-minimal', 'python3-mpmath', 'python3-numpy', 'python3-optlang', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pydantic', 'python3-pygments', 'python3-rfc3986', 'python3-rich', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-sbml5', 'python3-simplejson', 'python3-six', 'python3-sniffio', 'python3-swiglpk', 'python3-sympy', 'python3-tabulate', 'python3-typing-extensions', 'python3-tz', 'python3.9', 'python3.9-minimal', 'readline-common', 'swig', 'swig4.0'] 0m50.5s DUMP: (Reading database ... 6672 files and directories currently installed.) Purging configuration files for ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove libamd2 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libcolamd2 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libglpk40 which isn't installed dpkg: warning: ignoring request to remove libicu67 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.9 which isn't installed Purging configuration files for libpython3.9-minimal:amd64 (3.9.2-1) ... dpkg: warning: ignoring request to remove libpython3.9-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libsuitesparseconfig5 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed Purging configuration files for media-types (4.0.0) ... Purging configuration files for openssl (1.1.1w-0+deb11u1) ... dpkg: warning: ignoring request to remove python-cobra-data which isn't installed Purging configuration files for python3 (3.9.2-3) ... dpkg: warning: ignoring request to remove python3-appdirs which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-colorama which isn't installed dpkg: warning: ignoring request to remove python3-commonmark which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-depinfo which isn't installed dpkg: warning: ignoring request to remove python3-diskcache which isn't installed dpkg: warning: ignoring request to remove python3-future which isn't installed dpkg: warning: ignoring request to remove python3-h11 which isn't installed dpkg: warning: ignoring request to remove python3-httpcore which isn't installed dpkg: warning: ignoring request to remove python3-httpx which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-mpmath which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-optlang which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pydantic which isn't installed dpkg: warning: ignoring request to remove python3-pygments which isn't installed dpkg: warning: ignoring request to remove python3-rfc3986 which isn't installed dpkg: warning: ignoring request to remove python3-rich which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml.clib which isn't installed dpkg: warning: ignoring request to remove python3-sbml5 which isn't installed dpkg: warning: ignoring request to remove python3-simplejson which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-sniffio which isn't installed dpkg: warning: ignoring request to remove python3-swiglpk which isn't installed Purging configuration files for python3-sympy (1.7.1-3) ... dpkg: warning: ignoring request to remove python3-tabulate which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3.9 which isn't installed Purging configuration files for python3.9-minimal (3.9.2-1) ... Purging configuration files for readline-common (8.1-1) ... dpkg: warning: ignoring request to remove swig which isn't installed dpkg: warning: ignoring request to remove swig4.0 which isn't installed 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', 'ca-certificates', 'libamd2:amd64', 'libblas3:amd64', 'libcolamd2:amd64', 'libexpat1:amd64', 'libgfortran5:amd64', 'libglpk40:amd64', 'libicu67:amd64', 'liblapack3:amd64', 'libltdl7:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.9:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libsuitesparseconfig5:amd64', 'libxml2:amd64', 'media-types', 'openssl', 'python-cobra-data', 'python3', 'python3-appdirs', 'python3-certifi', 'python3-colorama', 'python3-commonmark', 'python3-dateutil', 'python3-depinfo', 'python3-diskcache', 'python3-future', 'python3-h11', 'python3-httpcore', 'python3-httpx', 'python3-idna', 'python3-lib2to3', 'python3-minimal', 'python3-mpmath', 'python3-numpy', 'python3-optlang', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-pydantic', 'python3-pygments', 'python3-rfc3986', 'python3-rich', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-sbml5', 'python3-simplejson', 'python3-six', 'python3-sniffio', 'python3-swiglpk', 'python3-sympy', 'python3-tabulate', 'python3-typing-extensions', 'python3-tz', 'python3.9', 'python3.9-minimal', 'readline-common', 'swig', 'swig4.0'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', 'python3-cobra'] 0m50.5s DUMP: dpkg: warning: ignoring request to remove python3-cobra which isn't installed 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', 'python3-cobra'] 0m50.5s INFO: Running scripts post_purge 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_purge_exceptions'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_purge_exceptions'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', '--pending'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--purge', '--pending'] 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--remove', '--pending'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg', '--remove', '--pending'] 0m50.5s INFO: Running scripts post_test 0m50.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_test_exceptions'] 0m50.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'tmp/scripts/post_test_exceptions'] 0m50.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m51.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m51.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-divert', '--list'] 0m51.1s 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 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'dpkg-divert', '--list'] 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'clean'] 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz', 'apt-get', 'clean'] 0m51.1s DEBUG: Recording chroot state 0m52.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/shm'] 0m52.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/shm'] 0m52.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/console'] 0m52.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/console'] 0m52.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/ptmx'] 0m52.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/ptmx'] 0m52.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts'] 0m52.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/dev/pts'] 0m52.1s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/proc'] 0m52.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz/proc'] 0m52.2s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m52.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp0r8eyugz'] 0m52.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp0r8eyugz 0m52.3s INFO: PASS: Upgrading between Debian distributions. 0m52.3s INFO: PASS: All tests. 0m52.3s INFO: piuparts run ends. ret=0 End: 2024-01-15 05:51:52 GMT