Start: 2024-04-01 08:27:11 GMT Package: snakemake Version: 7.21.0-1 Installed-Size: 1484 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-appdirs, python3-configargparse, python3-connection-pool, python3-datrie, python3-docutils, python3-git, python3-humanfriendly, python3-jinja2 (>= 3.0~), python3-jsonschema, python3-nbformat, python3-psutil, python3-pulp (>= 2.0~), python3-requests, python3-retry, python3-smart-open (>= 3.0~), python3-stopit, python3-tabulate, python3-throttler, python3-toposort, python3-wrapt, python3-yaml, python3:any, ca-certificates, python3-pkg-resources, python3-ratelimiter, libjs-bootstrap, libjs-jquery Recommends: cwltool, imagemagick, python3-tz, python3-yappi, python3-pygments, python3-azure-storage, python3-biopython, python3-boto3, python3-botocore, python3-dropbox, python3-flask, python3-ftputil, python3-irodsclient, python3-kubernetes, python3-urllib3 Suggests: slurm-client, snakemake-doc Description: pythonic workflow management system Homepage: https://snakemake.readthedocs.io/ Description-md5: 7f9c57469c639aa1e67301b2a7ed865e Section: science Priority: optional Filename: pool/main/s/snakemake/snakemake_7.21.0-1_all.deb Size: 301468 MD5sum: 6ebcdc849d5c14eb9fcdb1b1fc0d0664 SHA256: 9c20c65785aee786ea6332a3194b68afabc378a46f585d597218bc870a96fec4 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-log-alternatives --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/bookworm-merged-usr_amd64.tar.gz -d bookworm --no-upgrade-test --apt snakemake=7.21.0-1 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 1.4.1~202403190841~1.4-4-g85045c69 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --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/bookworm-merged-usr_amd64.tar.gz -d bookworm --no-upgrade-test --apt snakemake=7.21.0-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp9ic3xmm6 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp9ic3xmm6 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/proc'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/proc'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/ptmx'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/ptmx'] 0m0.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/console'] 0m0.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/console'] 0m0.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/shm'] 0m0.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/shm'] 0m0.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.5s DEBUG: Created policy-rc.d and chmodded it. 0m0.5s DEBUG: Created resolv.conf. 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmp9ic3xmm6/tmp/scripts/ 0m0.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp9ic3xmm6/tmp/scripts/ 0m0.5s INFO: Running scripts post_chroot_unpack 0m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'update'] 0m1.7s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'update'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: 0942a352c5bc637c4fdbc12bf31cd5ba - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_dummy_users'] 0m3.8s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_dummy_users'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_forbid_home'] 0m3.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_forbid_home'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.9s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_minimize'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_minimize'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_zz_backports'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_setup_zz_backports'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'clean'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'clean'] 0m3.9s DEBUG: Recording chroot state 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.4s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u5 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+b1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+b1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u4 install ok installed libc6:amd64 libc6 2.36-9+deb12u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u2 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+b1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+b1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.22-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.22-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+b1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+b1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-divert', '--list'] 0m4.4s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-divert', '--list'] 0m4.4s INFO: Running scripts is_testable 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s INFO: apt-cache does not know about any of the requested packages 0m4.4s INFO: Running scripts pre_test 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_test_exceptions'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', '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/tmp9ic3xmm6', 'tmp/scripts/pre_test_root_password'] 0m4.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 0m4.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 0m5.3s DEBUG: No broken symlinks as far as we can find. 0m5.3s INFO: Running scripts pre_install 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_database-server'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_database-server'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_exceptions'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_exceptions'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_extras'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_extras'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_log_alternatives'] 0m5.3s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_install_log_alternatives'] 0m5.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 0m5.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 0m6.1s DEBUG: No broken symlinks as far as we can find. 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-cache', 'policy'] 0m7.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.5,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-cache', 'policy'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-cache', 'policy', 'snakemake'] 0m7.2s DUMP: snakemake: Installed: (none) Candidate: 7.21.0-1 Version table: 7.21.0-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-cache', 'policy', 'snakemake'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', '-y', 'install', 'snakemake=7.21.0-1'] 1m57.2s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 docutils-common fonts-glyphicons-halflings gir1.2-glib-2.0 git git-man libblas3 libbrotli1 libcurl3-gnutls libdatrie1 liberror-perl libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgirepository-1.0-1 libglib2.0-0 libgssapi-krb5-2 libjs-bootstrap libjs-jquery libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libperl5.36 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsodium23 libsqlite3-0 libssh2-1 libssl3 libtirpc-common libtirpc3 libyaml-0-2 media-types openssl perl perl-modules-5.36 python3 python3-adal python3-aiohttp python3-aiosignal python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-bcrypt python3-blinker python3-boto3 python3-botocore python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-colorama python3-configargparse python3-connection-pool python3-cryptography python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-fastjsonschema python3-frozenlist python3-gi python3-git python3-gitdb python3-humanfriendly python3-idna python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-lib2to3 python3-markupsafe python3-marshmallow python3-minimal python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-oauthlib python3-packaging python3-paramiko python3-pkg-resources python3-portalocker python3-psutil python3-pulp python3-py python3-pyparsing python3-pyrsistent python3-ratelimiter python3-requests python3-requests-oauthlib python3-retry python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-six python3-smart-open python3-smmap python3-stopit python3-strictyaml python3-tabulate python3-throttler python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-uamqp python3-urllib3 python3-wrapt python3-yaml python3-yarl python3.11 python3.11-minimal readline-common sgml-base xml-core Suggested packages: gettext-base git-daemon-run | git-daemon-sysvinit git-doc git-email git-gui gitk gitweb git-cvs git-mediawiki git-svn gdbm-l10n low-memory-monitor krb5-doc krb5-user sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python-attr-doc python-azure-doc python-blinker-doc python-cryptography-doc python3-cryptography-vectors docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base texlive-latex-recommended python-fastjsonschema-doc python-git-doc python-jinja2-doc python-jsonschema-doc python3-pip python3-crypto python-nacl-doc python3-gssapi python3-setuptools python-psutil-doc subversion python3-pytest python-pyparsing-doc python3-openssl python3-socks python-requests-doc python3-nose python3-brotli python3.11-venv python3.11-doc binutils binfmt-support readline-doc sgml-base-doc slurm-client snakemake-doc debhelper Recommended packages: patch less ssh-client libglib2.0-data shared-mime-info xdg-user-dirs javascript-common krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules netbase libpaper-utils python3-pil python3-pygments python3-babel python3-json-pointer python3-rfc3987 python3-uritemplate python3-webcolors python3-invoke cwltool imagemagick python3-tz python3-yappi python3-biopython python3-dropbox python3-flask python3-ftputil python3-irodsclient python3-kubernetes The following NEW packages will be installed: ca-certificates coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 docutils-common fonts-glyphicons-halflings gir1.2-glib-2.0 git git-man libblas3 libbrotli1 libcurl3-gnutls libdatrie1 liberror-perl libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgirepository-1.0-1 libglib2.0-0 libgssapi-krb5-2 libjs-bootstrap libjs-jquery libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libperl5.36 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsodium23 libsqlite3-0 libssh2-1 libssl3 libtirpc-common libtirpc3 libyaml-0-2 media-types openssl perl perl-modules-5.36 python3 python3-adal python3-aiohttp python3-aiosignal python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-bcrypt python3-blinker python3-boto3 python3-botocore python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-colorama python3-configargparse python3-connection-pool python3-cryptography python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-fastjsonschema python3-frozenlist python3-gi python3-git python3-gitdb python3-humanfriendly python3-idna python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-lib2to3 python3-markupsafe python3-marshmallow python3-minimal python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-oauthlib python3-packaging python3-paramiko python3-pkg-resources python3-portalocker python3-psutil python3-pulp python3-py python3-pyparsing python3-pyrsistent python3-ratelimiter python3-requests python3-requests-oauthlib python3-retry python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-six python3-smart-open python3-smmap python3-stopit python3-strictyaml python3-tabulate python3-throttler python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-uamqp python3-urllib3 python3-wrapt python3-yaml python3-yarl python3.11 python3.11-minimal readline-common sgml-base snakemake xml-core 0 upgraded, 147 newly installed, 0 to remove and 0 not upgraded. Need to get 62.6 MB of archives. After this operation, 845 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.11-1~deb12u2 [2019 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:16 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:27 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.11-1~deb12u2 [1419 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 coinor-libcoinutils3v5 amd64 2.11.4+repack1-2 [440 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 coinor-libosi1v5 amd64 0.108.6+repack1-2 [276 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 coinor-libclp1 amd64 1.17.6-3 [843 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 coinor-libcgl1 amd64 0.60.3+repack1-4 [409 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 coinor-libcbc3 amd64 2.10.8+ds1-1 [715 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 coinor-cbc amd64 2.10.8+ds1-1 [14.8 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 docutils-common all 0.19+dfsg-6 [127 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [162 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 libgirepository-1.0-1 amd64 1.74.0-3 [101 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 gir1.2-glib-2.0 amd64 1.74.0-3 [159 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-10+deb12u5 [385 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 liberror-perl all 0.17029-2 [29.0 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 git-man all 1:2.39.2-1.1 [2049 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 git amd64 1:2.39.2-1.1 [7171 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libjs-bootstrap all 3.4.1+dfsg-3 [172 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libsodium23 amd64 1.0.18-1 [161 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 python3-cffi-backend amd64 1.15.1-5+b1 [84.6 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 python3-cryptography amd64 38.0.4-3 [666 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 python3-dateutil all 2.8.2-2 [78.3 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 python3-jwt all 2.6.0-1 [26.6 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 python3-certifi all 2022.9.24-1 [153 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 python3-idna all 3.3-1 [39.4 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 python3-urllib3 all 1.26.12-1 [117 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 python3-chardet all 5.1.0+dfsg-2 [110 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 python3-adal all 1.2.7-2 [32.1 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 python3-multidict amd64 6.0.4-1+b1 [31.6 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 python3-yarl amd64 1.8.2-1+b1 [49.8 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 python3-typing-extensions all 4.4.0-1 [45.2 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 python3-async-timeout all 4.0.2-1 [7476 B] Get:81 http://deb.debian.org/debian bookworm/main amd64 python3-frozenlist amd64 1.3.3-1+b1 [30.0 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 python3-aiosignal all 1.3.1-1 [6016 B] Get:83 http://deb.debian.org/debian bookworm/main amd64 python3-attr all 22.2.0-1 [65.4 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 python3-aiohttp amd64 3.8.4-1 [251 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 python3-appdirs all 1.4.4-3 [13.0 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 python3-avro all 1.11.1+dfsg-2 [70.5 kB] Get:87 http://deb.debian.org/debian bookworm/main amd64 python3-isodate all 0.6.1-1 [25.3 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 python3-blinker all 1.5-1 [14.7 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 python3-oauthlib all 3.2.2-1 [95.4 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 python3-requests-oauthlib all 1.3.0+ds-1 [20.7 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 python3-msrest all 0.6.21-2 [48.0 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 python3-msrestazure all 0.6.4-2 [26.4 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 python3-azure-storage all 20230112+git-1 [280 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 python3-colorama all 0.4.6-2 [36.8 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 python3-pyrsistent amd64 0.18.1-1+b3 [60.0 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 python3-jsonschema all 4.10.3-1 [67.9 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 python3-packaging all 23.0-1 [32.5 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 python3-marshmallow all 3.18.0-1 [66.3 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 python3-msal all 1.21.0-1 [85.9 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 python3-gi amd64 3.42.2-3+b1 [219 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 python3-portalocker all 2.2.1-1 [18.5 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 python3-msal-extensions all 1.0.0-2 [16.9 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 python3-ruamel.yaml.clib amd64 0.2.7-1+b2 [113 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 python3-ruamel.yaml all 0.17.21-1 [103 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 python3-strictyaml all 1.6.1-3 [92.9 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 python3-tqdm all 4.64.1-1 [97.7 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 python3-uamqp amd64 1.5.3-1+b4 [647 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 python3-yaml amd64 6.0-3+b2 [119 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 python3-azure all 20230112+git-1 [11.9 MB] Get:110 http://deb.debian.org/debian bookworm/main amd64 python3-bcrypt amd64 3.2.2-1 [32.2 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 python3-jmespath all 1.0.1-1 [21.1 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 python3-botocore all 1.29.27+repack-1 [5502 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 python3-s3transfer all 0.6.0-1 [53.0 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 python3-boto3 all 1.26.27+dfsg-1 [187 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 python3-configargparse all 1.5.3-1 [26.1 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 python3-connection-pool all 0.0.3-2 [5584 B] Get:117 http://deb.debian.org/debian bookworm/main amd64 python3-datrie amd64 0.8.2-4+b1 [97.7 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 python3-decorator all 5.1.1-3 [14.9 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-3 [131 kB] Get:121 http://deb.debian.org/debian bookworm/main amd64 python3-roman all 3.3-3 [9880 B] Get:122 http://deb.debian.org/debian bookworm/main amd64 python3-docutils all 0.19+dfsg-6 [382 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 python3-fastjsonschema all 2.16.3-2 [21.6 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 python3-smmap all 5.0.0-1 [21.0 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 python3-gitdb all 4.0.9-2 [45.7 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 python3-git all 3.1.30-1+deb12u2 [135 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 python3-humanfriendly all 10.0-3 [85.2 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 python3-markupsafe amd64 2.1.2-1+b1 [13.2 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 python3-jinja2 all 3.1.2-1 [119 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 python3-traitlets all 5.5.0-1 [92.4 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 python3-jupyter-core all 4.12.0-1 [27.3 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 python3-nacl amd64 1.5.0-2 [59.3 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 python3-nbformat all 5.5.0-1 [43.2 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 python3-paramiko all 2.12.0-2 [133 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 python3-psutil amd64 5.9.4-1+b1 [189 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 python3-pyparsing all 3.0.9-1 [138 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 python3-pulp all 2.6.0+dfsg-1 [66.0 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 python3-py all 1.11.0-1 [89.2 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 python3-ratelimiter amd64 1.2.0.post0-4 [5740 B] Get:140 http://deb.debian.org/debian bookworm/main amd64 python3-retry all 0.9.2-2 [7020 B] Get:141 http://deb.debian.org/debian bookworm/main amd64 python3-smart-open all 5.2.1-5 [87.9 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 python3-stopit all 1.1.2-2 [12.6 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 python3-tabulate all 0.8.9-1 [35.2 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 python3-throttler all 1.2.2-2 [7072 B] Get:145 http://deb.debian.org/debian bookworm/main amd64 python3-toposort all 1.9-1 [7272 B] Get:146 http://deb.debian.org/debian bookworm/main amd64 python3-wrapt amd64 1.14.1-2+b2 [42.1 kB] Get:147 http://deb.debian.org/debian bookworm/main amd64 snakemake all 7.21.0-1 [301 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 62.6 MB in 2s (27.8 MB/s) Selecting previously unselected package perl-modules-5.36. (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 ... 6103 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Unpacking libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../025-libpsl5_0.21.2-1_amd64.deb ... Unpacking libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../026-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../027-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../028-libcurl3-gnutls_7.88.1-10+deb12u5_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.88.1-10+deb12u5) ... Selecting previously unselected package liberror-perl. Preparing to unpack .../029-liberror-perl_0.17029-2_all.deb ... Unpacking liberror-perl (0.17029-2) ... Selecting previously unselected package git-man. 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Selecting previously unselected package python3-msrestazure. Preparing to unpack .../065-python3-msrestazure_0.6.4-2_all.deb ... Unpacking python3-msrestazure (0.6.4-2) ... Selecting previously unselected package python3-azure-storage. Preparing to unpack .../066-python3-azure-storage_20230112+git-1_all.deb ... Unpacking python3-azure-storage (20230112+git-1) ... Selecting previously unselected package python3-colorama. Preparing to unpack .../067-python3-colorama_0.4.6-2_all.deb ... Unpacking python3-colorama (0.4.6-2) ... Selecting previously unselected package python3-pyrsistent:amd64. Preparing to unpack .../068-python3-pyrsistent_0.18.1-1+b3_amd64.deb ... Unpacking python3-pyrsistent:amd64 (0.18.1-1+b3) ... Selecting previously unselected package python3-jsonschema. Preparing to unpack .../069-python3-jsonschema_4.10.3-1_all.deb ... Unpacking python3-jsonschema (4.10.3-1) ... Selecting previously unselected package python3-packaging. 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Selecting previously unselected package python3-ruamel.yaml.clib:amd64. Preparing to unpack .../076-python3-ruamel.yaml.clib_0.2.7-1+b2_amd64.deb ... Unpacking python3-ruamel.yaml.clib:amd64 (0.2.7-1+b2) ... Selecting previously unselected package python3-ruamel.yaml. Preparing to unpack .../077-python3-ruamel.yaml_0.17.21-1_all.deb ... Unpacking python3-ruamel.yaml (0.17.21-1) ... Selecting previously unselected package python3-strictyaml. Preparing to unpack .../078-python3-strictyaml_1.6.1-3_all.deb ... Unpacking python3-strictyaml (1.6.1-3) ... Selecting previously unselected package python3-tqdm. Preparing to unpack .../079-python3-tqdm_4.64.1-1_all.deb ... Unpacking python3-tqdm (4.64.1-1) ... Selecting previously unselected package python3-uamqp. Preparing to unpack .../080-python3-uamqp_1.5.3-1+b4_amd64.deb ... Unpacking python3-uamqp (1.5.3-1+b4) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../081-python3-yaml_6.0-3+b2_amd64.deb ... Unpacking python3-yaml (6.0-3+b2) ... Selecting previously unselected package python3-azure. Preparing to unpack .../082-python3-azure_20230112+git-1_all.deb ... Unpacking python3-azure (20230112+git-1) ... Selecting previously unselected package python3-bcrypt. Preparing to unpack .../083-python3-bcrypt_3.2.2-1_amd64.deb ... Unpacking python3-bcrypt (3.2.2-1) ... Selecting previously unselected package python3-jmespath. Preparing to unpack .../084-python3-jmespath_1.0.1-1_all.deb ... Unpacking python3-jmespath (1.0.1-1) ... Selecting previously unselected package python3-botocore. Preparing to unpack .../085-python3-botocore_1.29.27+repack-1_all.deb ... Unpacking python3-botocore (1.29.27+repack-1) ... Selecting previously unselected package python3-s3transfer. Preparing to unpack .../086-python3-s3transfer_0.6.0-1_all.deb ... Unpacking python3-s3transfer (0.6.0-1) ... Selecting previously unselected package python3-boto3. Preparing to unpack .../087-python3-boto3_1.26.27+dfsg-1_all.deb ... Unpacking python3-boto3 (1.26.27+dfsg-1) ... Selecting previously unselected package python3-configargparse. Preparing to unpack .../088-python3-configargparse_1.5.3-1_all.deb ... Unpacking python3-configargparse (1.5.3-1) ... Selecting previously unselected package python3-connection-pool. Preparing to unpack .../089-python3-connection-pool_0.0.3-2_all.deb ... Unpacking python3-connection-pool (0.0.3-2) ... Selecting previously unselected package python3-datrie:amd64. Preparing to unpack .../090-python3-datrie_0.8.2-4+b1_amd64.deb ... Unpacking python3-datrie:amd64 (0.8.2-4+b1) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../091-python3-decorator_5.1.1-3_all.deb ... Unpacking python3-decorator (5.1.1-3) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../092-python3-lib2to3_3.11.2-3_all.deb ... Unpacking python3-lib2to3 (3.11.2-3) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../093-python3-distutils_3.11.2-3_all.deb ... Unpacking python3-distutils (3.11.2-3) ... Selecting previously unselected package python3-roman. Preparing to unpack .../094-python3-roman_3.3-3_all.deb ... Unpacking python3-roman (3.3-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../095-python3-docutils_0.19+dfsg-6_all.deb ... Unpacking python3-docutils (0.19+dfsg-6) ... Selecting previously unselected package python3-fastjsonschema. Preparing to unpack .../096-python3-fastjsonschema_2.16.3-2_all.deb ... Unpacking python3-fastjsonschema (2.16.3-2) ... Selecting previously unselected package python3-smmap. Preparing to unpack .../097-python3-smmap_5.0.0-1_all.deb ... Unpacking python3-smmap (5.0.0-1) ... Selecting previously unselected package python3-gitdb. Preparing to unpack .../098-python3-gitdb_4.0.9-2_all.deb ... Unpacking python3-gitdb (4.0.9-2) ... Selecting previously unselected package python3-git. Preparing to unpack .../099-python3-git_3.1.30-1+deb12u2_all.deb ... Unpacking python3-git (3.1.30-1+deb12u2) ... Selecting previously unselected package python3-humanfriendly. Preparing to unpack .../100-python3-humanfriendly_10.0-3_all.deb ... Unpacking python3-humanfriendly (10.0-3) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../101-python3-markupsafe_2.1.2-1+b1_amd64.deb ... Unpacking python3-markupsafe (2.1.2-1+b1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../102-python3-jinja2_3.1.2-1_all.deb ... Unpacking python3-jinja2 (3.1.2-1) ... Selecting previously unselected package python3-traitlets. Preparing to unpack .../103-python3-traitlets_5.5.0-1_all.deb ... Unpacking python3-traitlets (5.5.0-1) ... Selecting previously unselected package python3-jupyter-core. Preparing to unpack .../104-python3-jupyter-core_4.12.0-1_all.deb ... Unpacking python3-jupyter-core (4.12.0-1) ... Selecting previously unselected package python3-nacl. Preparing to unpack .../105-python3-nacl_1.5.0-2_amd64.deb ... Unpacking python3-nacl (1.5.0-2) ... Selecting previously unselected package python3-nbformat. Preparing to unpack .../106-python3-nbformat_5.5.0-1_all.deb ... Unpacking python3-nbformat (5.5.0-1) ... Selecting previously unselected package python3-paramiko. Preparing to unpack .../107-python3-paramiko_2.12.0-2_all.deb ... Unpacking python3-paramiko (2.12.0-2) ... Selecting previously unselected package python3-psutil. Preparing to unpack .../108-python3-psutil_5.9.4-1+b1_amd64.deb ... Unpacking python3-psutil (5.9.4-1+b1) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../109-python3-pyparsing_3.0.9-1_all.deb ... Unpacking python3-pyparsing (3.0.9-1) ... Selecting previously unselected package python3-pulp. Preparing to unpack .../110-python3-pulp_2.6.0+dfsg-1_all.deb ... Unpacking python3-pulp (2.6.0+dfsg-1) ... Selecting previously unselected package python3-py. Preparing to unpack .../111-python3-py_1.11.0-1_all.deb ... Unpacking python3-py (1.11.0-1) ... Selecting previously unselected package python3-ratelimiter. Preparing to unpack .../112-python3-ratelimiter_1.2.0.post0-4_amd64.deb ... Unpacking python3-ratelimiter (1.2.0.post0-4) ... Selecting previously unselected package python3-retry. Preparing to unpack .../113-python3-retry_0.9.2-2_all.deb ... Unpacking python3-retry (0.9.2-2) ... Selecting previously unselected package python3-smart-open. Preparing to unpack .../114-python3-smart-open_5.2.1-5_all.deb ... Unpacking python3-smart-open (5.2.1-5) ... Selecting previously unselected package python3-stopit. Preparing to unpack .../115-python3-stopit_1.1.2-2_all.deb ... Unpacking python3-stopit (1.1.2-2) ... Selecting previously unselected package python3-tabulate. Preparing to unpack .../116-python3-tabulate_0.8.9-1_all.deb ... Unpacking python3-tabulate (0.8.9-1) ... Selecting previously unselected package python3-throttler. Preparing to unpack .../117-python3-throttler_1.2.2-2_all.deb ... Unpacking python3-throttler (1.2.2-2) ... Selecting previously unselected package python3-toposort. Preparing to unpack .../118-python3-toposort_1.9-1_all.deb ... Unpacking python3-toposort (1.9-1) ... Selecting previously unselected package python3-wrapt. Preparing to unpack .../119-python3-wrapt_1.14.1-2+b2_amd64.deb ... Unpacking python3-wrapt (1.14.1-2+b2) ... Selecting previously unselected package snakemake. Preparing to unpack .../120-snakemake_7.21.0-1_all.deb ... Unpacking snakemake (7.21.0-1) ... Setting up media-types (10.0.0) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up libpsl5:amd64 (0.21.2-1) ... Setting up libsodium23:amd64 (1.0.18-1) ... Setting up libdatrie1:amd64 (0.2.13-2+b1) ... Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libquadmath0:amd64 (12.2.0-14) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up git-man (1:2.39.2-1.1) ... Setting up libgirepository-1.0-1:amd64 (1.74.0-3) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up readline-common (8.2-1.3) ... Setting up libjs-bootstrap (3.4.1+dfsg-3) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up coinor-libcoinutils3v5:amd64 (2.11.4+repack1-2) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up gir1.2-glib-2.0:amd64 (1.74.0-3) ... Setting up coinor-libosi1v5:amd64 (0.108.6+repack1-2) ... Setting up xml-core (0.18+nmu1) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10+deb12u5) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up coinor-libclp1:amd64 (1.17.6-3) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up coinor-libcgl1:amd64 (0.60.3+repack1-4) ... Setting up coinor-libcbc3:amd64 (2.10.8+ds1-1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up liberror-perl (0.17029-2) ... Setting up coinor-cbc (2.10.8+ds1-1) ... Setting up git (1:2.39.2-1.1) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up python3-psutil (5.9.4-1+b1) ... Setting up python3-multidict (6.0.4-1+b1) ... Setting up python3-frozenlist (1.3.3-1+b1) ... Setting up python3-aiosignal (1.3.1-1) ... Setting up python3-ratelimiter (1.2.0.post0-4) ... Setting up python3-async-timeout (4.0.2-1) ... Setting up python3-six (1.16.0-4) ... Setting up python3-isodate (0.6.1-1) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up python3-humanfriendly (10.0-3) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-avro (1.11.1+dfsg-2) ... Setting up python3-jmespath (1.0.1-1) ... Setting up python3-gi (3.42.2-3+b1) ... Setting up python3-connection-pool (0.0.3-2) ... Setting up python3-idna (3.3-1) ... Setting up python3-wrapt (1.14.1-2+b2) ... Setting up python3-throttler (1.2.2-2) ... Setting up python3-typing-extensions (4.4.0-1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up python3-fastjsonschema (2.16.3-2) ... Setting up python3-pyrsistent:amd64 (0.18.1-1+b3) ... Setting up python3-traitlets (5.5.0-1) ... Setting up python3-portalocker (2.2.1-1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-datrie:amd64 (0.8.2-4+b1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-appdirs (1.4.4-3) ... Setting up python3-yarl (1.8.2-1+b1) ... Setting up python3-smmap (5.0.0-1) ... Setting up python3-cffi-backend:amd64 (1.15.1-5+b1) ... Setting up python3-blinker (1.5-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up python3-toposort (1.9-1) ... Setting up python3-configargparse (1.5.3-1) ... Setting up python3-attr (22.2.0-1) ... Setting up python3-py (1.11.0-1) ... Setting up python3-jwt (2.6.0-1) ... Setting up python3-colorama (0.4.6-2) ... Setting up python3-pulp (2.6.0+dfsg-1) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up python3-bcrypt (3.2.2-1) ... Setting up python3-tqdm (4.64.1-1) ... Setting up python3-ruamel.yaml.clib:amd64 (0.2.7-1+b2) ... Setting up python3-aiohttp (3.8.4-1) ... Setting up python3-marshmallow (3.18.0-1) ... Setting up python3-tabulate (0.8.9-1) ... Setting up python3-yaml (6.0-3+b2) ... Setting up python3-gitdb (4.0.9-2) ... Setting up python3-uamqp (1.5.3-1+b4) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up python3-jsonschema (4.10.3-1) ... Setting up python3-cryptography (38.0.4-3) ... Setting up python3-git (3.1.30-1+deb12u2) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up python3-retry (0.9.2-2) ... Setting up python3-ruamel.yaml (0.17.21-1) ... Setting up python3-adal (1.2.7-2) ... Setting up python3-stopit (1.1.2-2) ... Setting up python3-jupyter-core (4.12.0-1) ... Setting up python3-nacl (1.5.0-2) ... Setting up python3-msal (1.21.0-1) ... Setting up python3-msal-extensions (1.0.0-2) ... Setting up python3-nbformat (5.5.0-1) ... Setting up python3-strictyaml (1.6.1-3) ... Setting up python3-oauthlib (3.2.2-1) ... Setting up python3-botocore (1.29.27+repack-1) ... Setting up python3-paramiko (2.12.0-2) ... Setting up python3-requests-oauthlib (1.3.0+ds-1) ... Setting up python3-s3transfer (0.6.0-1) ... Setting up python3-msrest (0.6.21-2) ... Setting up python3-boto3 (1.26.27+dfsg-1) ... Setting up python3-msrestazure (0.6.4-2) ... Setting up python3-azure (20230112+git-1) ... Setting up python3-azure-storage (20230112+git-1) ... Setting up python3-smart-open (5.2.1-5) ... Processing triggers for libc-bin (2.36-9+deb12u4) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up snakemake (7.21.0-1) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m57.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', '-y', 'install', 'snakemake=7.21.0-1'] 1m57.2s INFO: Running scripts post_install 1m57.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_install_exceptions'] 1m57.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_install_exceptions'] 1m57.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_install_log_alternatives'] 1m57.2s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=snakemake=7.21.0-1: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=libblas3: piuparts=snakemake=7.21.0-1: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/libblas.so.3 libblas.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 10 LOG-ALTERNATIVES: dpkg=liblapack3: piuparts=snakemake=7.21.0-1: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/liblapack.so.3 liblapack.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 10 LOG-ALTERNATIVES: dpkg=perl: piuparts=snakemake=7.21.0-1: /usr/bin/update-alternatives --remove rename /usr/bin/prename 1m57.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_install_log_alternatives'] 1m57.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 1m59.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 2m6.7s DEBUG: No broken symlinks as far as we can find. 2m6.8s INFO: /bin converted to /usr/bin by /usr merge 2m6.8s INFO: /lib converted to /usr/lib by /usr merge 2m6.8s INFO: /lib/init converted to /usr/lib/init by /usr merge 2m6.8s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 2m6.8s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 2m6.8s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 2m6.8s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 2m6.8s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 2m6.8s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 2m6.8s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 2m6.8s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 2m6.8s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 2m6.8s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 2m6.8s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 2m6.8s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 2m6.8s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 2m6.8s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 2m6.8s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 2m6.8s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 2m6.8s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 2m6.8s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 2m6.8s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 2m6.8s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 2m6.8s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 2m6.8s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 2m6.8s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 2m6.8s INFO: /lib64 converted to /usr/lib64 by /usr merge 2m6.8s INFO: /sbin converted to /usr/sbin by /usr merge 2m10.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', '-ac', '--ignore-obsolete'] 2m14.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', '-ac', '--ignore-obsolete'] 2m14.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m14.9s DUMP: 0.15.6 2m14.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m14.9s INFO: Running adequate version 0.15.6 now. 2m14.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'snakemake'] 2m15.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'snakemake'] 2m15.0s INFO: Running scripts pre_remove 2m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m20.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m20.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_exceptions'] 2m21.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/pre_remove_exceptions'] 2m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m21.3s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u5 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+b1 install ok installed ca-certificates ca-certificates 20230311 install ok installed coinor-cbc coinor-cbc 2.10.8+ds1-1 install ok installed coinor-libcbc3:amd64 coinor-libcbc3 2.10.8+ds1-1 install ok installed coinor-libcgl1:amd64 coinor-libcgl1 0.60.3+repack1-4 install ok installed coinor-libclp1:amd64 coinor-libclp1 1.17.6-3 install ok installed coinor-libcoinutils3v5:amd64 coinor-libcoinutils3v5 2.11.4+repack1-2 install ok installed coinor-libosi1v5:amd64 coinor-libosi1v5 0.108.6+repack1-2 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed docutils-common docutils-common 0.19+dfsg-6 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed fonts-glyphicons-halflings fonts-glyphicons-halflings 1.009~3.4.1+dfsg-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gir1.2-glib-2.0:amd64 gir1.2-glib-2.0 1.74.0-3 install ok installed git git 1:2.39.2-1.1 install ok installed git-man git-man 1:2.39.2-1.1 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblas3:amd64 libblas3 3.11.0-2 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+b1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u4 install ok installed libc6:amd64 libc6 2.36-9+deb12u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.88.1-10+deb12u5 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-2+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed liberror-perl liberror-perl 0.17029-2 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgfortran5:amd64 libgfortran5 12.2.0-14 install ok installed libgirepository-1.0-1:amd64 libgirepository-1.0-1 1.74.0-3 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.74.6-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u2 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-2+deb12u1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libjs-bootstrap libjs-bootstrap 3.4.1+dfsg-3 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-2+deb12u1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-2+deb12u1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-2+deb12u1 install ok installed liblapack3:amd64 liblapack3 3.11.0-2 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+b1 install ok installed libncursesw6:amd64 libncursesw6 6.4-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.52.0-1+deb12u1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libpsl5:amd64 libpsl5 0.21.2-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.2-1+b1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.2-6 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.2-6 install ok installed libquadmath0:amd64 libquadmath0 12.2.0-14 install ok installed libreadline8:amd64 libreadline8 8.2-1.3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg-10 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+b1 install ok installed libsodium23:amd64 libsodium23 1.0.18-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.1-2 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssh2-1:amd64 libssh2-1 1.10.0-3+b1 install ok installed libssl3:amd64 libssl3 3.0.11-1~deb12u2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.22-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libudev1:amd64 libudev1 252.22-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 10.0.0 install ok installed mount mount 2.38.1-5+b1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed openssl openssl 3.0.11-1~deb12u2 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl perl 5.36.0-7+deb12u1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed python3 python3 3.11.2-1+b1 install ok installed python3-adal python3-adal 1.2.7-2 install ok installed python3-aiohttp python3-aiohttp 3.8.4-1 install ok installed python3-aiosignal python3-aiosignal 1.3.1-1 install ok installed python3-appdirs python3-appdirs 1.4.4-3 install ok installed python3-async-timeout python3-async-timeout 4.0.2-1 install ok installed python3-attr python3-attr 22.2.0-1 install ok installed python3-avro python3-avro 1.11.1+dfsg-2 install ok installed python3-azure python3-azure 20230112+git-1 install ok installed python3-azure-storage python3-azure-storage 20230112+git-1 install ok installed python3-bcrypt python3-bcrypt 3.2.2-1 install ok installed python3-blinker python3-blinker 1.5-1 install ok installed python3-boto3 python3-boto3 1.26.27+dfsg-1 install ok installed python3-botocore python3-botocore 1.29.27+repack-1 install ok installed python3-certifi python3-certifi 2022.9.24-1 install ok installed python3-cffi-backend:amd64 python3-cffi-backend 1.15.1-5+b1 install ok installed python3-chardet python3-chardet 5.1.0+dfsg-2 install ok installed python3-charset-normalizer python3-charset-normalizer 3.0.1-2 install ok installed python3-colorama python3-colorama 0.4.6-2 install ok installed python3-configargparse python3-configargparse 1.5.3-1 install ok installed python3-connection-pool python3-connection-pool 0.0.3-2 install ok installed python3-cryptography python3-cryptography 38.0.4-3 install ok installed python3-dateutil python3-dateutil 2.8.2-2 install ok installed python3-datrie:amd64 python3-datrie 0.8.2-4+b1 install ok installed python3-decorator python3-decorator 5.1.1-3 install ok installed python3-distutils python3-distutils 3.11.2-3 install ok installed python3-docutils python3-docutils 0.19+dfsg-6 install ok installed python3-fastjsonschema python3-fastjsonschema 2.16.3-2 install ok installed python3-frozenlist python3-frozenlist 1.3.3-1+b1 install ok installed python3-gi python3-gi 3.42.2-3+b1 install ok installed python3-git python3-git 3.1.30-1+deb12u2 install ok installed python3-gitdb python3-gitdb 4.0.9-2 install ok installed python3-humanfriendly python3-humanfriendly 10.0-3 install ok installed python3-idna python3-idna 3.3-1 install ok installed python3-isodate python3-isodate 0.6.1-1 install ok installed python3-jinja2 python3-jinja2 3.1.2-1 install ok installed python3-jmespath python3-jmespath 1.0.1-1 install ok installed python3-jsonschema python3-jsonschema 4.10.3-1 install ok installed python3-jupyter-core python3-jupyter-core 4.12.0-1 install ok installed python3-jwt python3-jwt 2.6.0-1 install ok installed python3-lib2to3 python3-lib2to3 3.11.2-3 install ok installed python3-markupsafe python3-markupsafe 2.1.2-1+b1 install ok installed python3-marshmallow python3-marshmallow 3.18.0-1 install ok installed python3-minimal python3-minimal 3.11.2-1+b1 install ok installed python3-msal python3-msal 1.21.0-1 install ok installed python3-msal-extensions python3-msal-extensions 1.0.0-2 install ok installed python3-msrest python3-msrest 0.6.21-2 install ok installed python3-msrestazure python3-msrestazure 0.6.4-2 install ok installed python3-multidict python3-multidict 6.0.4-1+b1 install ok installed python3-nacl python3-nacl 1.5.0-2 install ok installed python3-nbformat python3-nbformat 5.5.0-1 install ok installed python3-oauthlib python3-oauthlib 3.2.2-1 install ok installed python3-packaging python3-packaging 23.0-1 install ok installed python3-paramiko python3-paramiko 2.12.0-2 install ok installed python3-pkg-resources python3-pkg-resources 66.1.1-1 install ok installed python3-portalocker python3-portalocker 2.2.1-1 install ok installed python3-psutil python3-psutil 5.9.4-1+b1 install ok installed python3-pulp python3-pulp 2.6.0+dfsg-1 install ok installed python3-py python3-py 1.11.0-1 install ok installed python3-pyparsing python3-pyparsing 3.0.9-1 install ok installed python3-pyrsistent:amd64 python3-pyrsistent 0.18.1-1+b3 install ok installed python3-ratelimiter python3-ratelimiter 1.2.0.post0-4 install ok installed python3-requests python3-requests 2.28.1+dfsg-1 install ok installed python3-requests-oauthlib python3-requests-oauthlib 1.3.0+ds-1 install ok installed python3-retry python3-retry 0.9.2-2 install ok installed python3-roman python3-roman 3.3-3 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.17.21-1 install ok installed python3-ruamel.yaml.clib:amd64 python3-ruamel.yaml.clib 0.2.7-1+b2 install ok installed python3-s3transfer python3-s3transfer 0.6.0-1 install ok installed python3-six python3-six 1.16.0-4 install ok installed python3-smart-open python3-smart-open 5.2.1-5 install ok installed python3-smmap python3-smmap 5.0.0-1 install ok installed python3-stopit python3-stopit 1.1.2-2 install ok installed python3-strictyaml python3-strictyaml 1.6.1-3 install ok installed python3-tabulate python3-tabulate 0.8.9-1 install ok installed python3-throttler python3-throttler 1.2.2-2 install ok installed python3-toposort python3-toposort 1.9-1 install ok installed python3-tqdm python3-tqdm 4.64.1-1 install ok installed python3-traitlets python3-traitlets 5.5.0-1 install ok installed python3-typing-extensions python3-typing-extensions 4.4.0-1 install ok installed python3-uamqp python3-uamqp 1.5.3-1+b4 install ok installed python3-urllib3 python3-urllib3 1.26.12-1 install ok installed python3-wrapt python3-wrapt 1.14.1-2+b2 install ok installed python3-yaml python3-yaml 6.0-3+b2 install ok installed python3-yarl python3-yarl 1.8.2-1+b1 install ok installed python3.11 python3.11 3.11.2-6 install ok installed python3.11-minimal python3.11-minimal 3.11.2-6 install ok installed readline-common readline-common 8.2-1.3 install ok installed sed sed 4.9-1 install ok installed sgml-base sgml-base 1.31 install ok installed snakemake snakemake 7.21.0-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+b1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+b1 install ok installed xml-core xml-core 0.18+nmu1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 2m21.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m21.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'remove', 'ca-certificates', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'docutils-common', 'fonts-glyphicons-halflings', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'libblas3:amd64', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgirepository-1.0-1:amd64', 'libglib2.0-0:amd64', 'libgssapi-krb5-2:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-bcrypt', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-colorama', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-distutils', 'python3-docutils', 'python3-fastjsonschema', 'python3-frozenlist', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-humanfriendly', 'python3-idna', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-lib2to3', 'python3-markupsafe', 'python3-marshmallow', 'python3-minimal', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pkg-resources', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-retry', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-stopit', 'python3-strictyaml', 'python3-tabulate', 'python3-throttler', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-uamqp', 'python3-urllib3', 'python3-wrapt', 'python3-yaml', 'python3-yarl', 'python3.11', 'python3.11-minimal', 'readline-common', 'sgml-base', 'xml-core', 'snakemake'] 2m37.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 docutils-common fonts-glyphicons-halflings gir1.2-glib-2.0 git git-man libblas3 libbrotli1 libcurl3-gnutls libdatrie1 liberror-perl libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgirepository-1.0-1 libglib2.0-0 libgssapi-krb5-2 libjs-bootstrap libjs-jquery libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libperl5.36 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsodium23 libsqlite3-0 libssh2-1 libssl3 libtirpc-common libtirpc3 libyaml-0-2 media-types openssl perl perl-modules-5.36 python3 python3-adal python3-aiohttp python3-aiosignal python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-bcrypt python3-blinker python3-boto3 python3-botocore python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-colorama python3-configargparse python3-connection-pool python3-cryptography python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-fastjsonschema python3-frozenlist python3-gi python3-git python3-gitdb python3-humanfriendly python3-idna python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-lib2to3 python3-markupsafe python3-marshmallow python3-minimal python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-oauthlib python3-packaging python3-paramiko python3-pkg-resources python3-portalocker python3-psutil python3-pulp python3-py python3-pyparsing python3-pyrsistent python3-ratelimiter python3-requests python3-requests-oauthlib python3-retry python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-six python3-smart-open python3-smmap python3-stopit python3-strictyaml python3-tabulate python3-throttler python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-uamqp python3-urllib3 python3-wrapt python3-yaml python3-yarl python3.11 python3.11-minimal readline-common sgml-base snakemake xml-core 0 upgraded, 0 newly installed, 147 to remove and 0 not upgraded. After this operation, 845 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 ... 44256 files and directories currently installed.) Removing snakemake (7.21.0-1) ... Removing python3-smart-open (5.2.1-5) ... Removing python3-pulp (2.6.0+dfsg-1) ... Removing coinor-cbc (2.10.8+ds1-1) ... Removing coinor-libcbc3:amd64 (2.10.8+ds1-1) ... Removing coinor-libcgl1:amd64 (0.60.3+repack1-4) ... Removing coinor-libclp1:amd64 (1.17.6-3) ... Removing coinor-libosi1v5:amd64 (0.108.6+repack1-2) ... Removing coinor-libcoinutils3v5:amd64 (2.11.4+repack1-2) ... Removing python3-docutils (0.19+dfsg-6) ... Removing docutils-common (0.19+dfsg-6) ... Removing libjs-bootstrap (3.4.1+dfsg-3) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... Removing python3-git (3.1.30-1+deb12u2) ... Removing git (1:2.39.2-1.1) ... Removing git-man (1:2.39.2-1.1) ... Removing liblapack3:amd64 (3.11.0-2) ... Removing libblas3:amd64 (3.11.0-2) ... Removing libcurl3-gnutls:amd64 (7.88.1-10+deb12u5) ... Removing libbrotli1:amd64 (1.0.9-2+b6) ... Removing python3-datrie:amd64 (0.8.2-4+b1) ... Removing libdatrie1:amd64 (0.2.13-2+b1) ... Removing liberror-perl (0.17029-2) ... Removing python3-nbformat (5.5.0-1) ... Removing python3-jupyter-core (4.12.0-1) ... Removing python3-distutils (3.11.2-3) ... Removing python3-traitlets (5.5.0-1) ... Removing perl (5.36.0-7+deb12u1) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4:amd64 (1.23-3) ... Removing libgdbm6:amd64 (1.23-3) ... Removing libgfortran5:amd64 (12.2.0-14) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Removing libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Removing libpsl5:amd64 (0.21.2-1) ... Removing libquadmath0:amd64 (12.2.0-14) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Removing python3-paramiko (2.12.0-2) ... Removing python3-nacl (1.5.0-2) ... Removing libsodium23:amd64 (1.0.18-1) ... Removing libssh2-1:amd64 (1.10.0-3+b1) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Removing python3-appdirs (1.4.4-3) ... Removing python3-bcrypt (3.2.2-1) ... Removing python3-boto3 (1.26.27+dfsg-1) ... Removing python3-s3transfer (0.6.0-1) ... Removing python3-botocore (1.29.27+repack-1) ... Removing python3-configargparse (1.5.3-1) ... Removing python3-connection-pool (0.0.3-2) ... Removing python3-retry (0.9.2-2) ... Removing python3-decorator (5.1.1-3) ... Removing python3-fastjsonschema (2.16.3-2) ... Removing python3-gitdb (4.0.9-2) ... Removing python3-humanfriendly (10.0-3) ... Removing python3-jinja2 (3.1.2-1) ... Removing python3-jmespath (1.0.1-1) ... Removing python3-lib2to3 (3.11.2-3) ... Removing python3-markupsafe (2.1.2-1+b1) ... Removing python3-stopit (1.1.2-2) ... Removing python3-py (1.11.0-1) ... Removing python3-psutil (5.9.4-1+b1) ... Removing python3-pyparsing (3.0.9-1) ... Removing python3-ratelimiter (1.2.0.post0-4) ... Removing python3-roman (3.3-3) ... Removing python3-wrapt (1.14.1-2+b2) ... Removing python3-smmap (5.0.0-1) ... Removing python3-tabulate (0.8.9-1) ... Removing python3-throttler (1.2.2-2) ... Removing python3-toposort (1.9-1) ... Removing xml-core (0.18+nmu1) ... Removing sgml-base (1.31) ... Removing python3-azure (20230112+git-1) ... Removing python3-msal-extensions (1.0.0-2) ... Removing python3-gi (3.42.2-3+b1) ... Removing gir1.2-glib-2.0:amd64 (1.74.0-3) ... Removing python3-aiohttp (3.8.4-1) ... Removing python3-yarl (1.8.2-1+b1) ... Removing python3-tqdm (4.64.1-1) ... Removing libgirepository-1.0-1:amd64 (1.74.0-3) ... Removing libglib2.0-0:amd64 (2.74.6-2) ... Removing python3-msrestazure (0.6.4-2) ... Removing python3-azure-storage (20230112+git-1) ... Removing python3-yaml (6.0-3+b2) ... Removing libyaml-0-2:amd64 (0.2.5-1) ... Removing python3-adal (1.2.7-2) ... Removing python3-aiosignal (1.3.1-1) ... Removing python3-async-timeout (4.0.2-1) ... Removing python3-jsonschema (4.10.3-1) ... Removing python3-attr (22.2.0-1) ... Removing python3-avro (1.11.1+dfsg-2) ... Removing python3-msal (1.21.0-1) ... Removing python3-uamqp (1.5.3-1+b4) ... Removing python3-colorama (0.4.6-2) ... Removing python3-strictyaml (1.6.1-3) ... Removing python3-dateutil (2.8.2-2) ... Removing python3-frozenlist (1.3.3-1+b1) ... Removing python3-marshmallow (3.18.0-1) ... Removing python3-multidict (6.0.4-1+b1) ... Removing python3-packaging (23.0-1) ... Removing python3-portalocker (2.2.1-1) ... Removing python3-pyrsistent:amd64 (0.18.1-1+b3) ... Removing python3-ruamel.yaml (0.17.21-1) ... Removing python3-ruamel.yaml.clib:amd64 (0.2.7-1+b2) ... Removing python3-typing-extensions (4.4.0-1) ... Removing python3-msrest (0.6.21-2) ... Removing python3-requests-oauthlib (1.3.0+ds-1) ... Removing python3-oauthlib (3.2.2-1) ... Removing python3-cryptography (38.0.4-3) ... Removing python3-blinker (1.5-1) ... Removing python3-cffi-backend:amd64 (1.15.1-5+b1) ... Removing python3-isodate (0.6.1-1) ... Removing python3-jwt (2.6.0-1) ... Removing python3-requests (2.28.1+dfsg-1) ... Removing python3-certifi (2022.9.24-1) ... Removing python3-chardet (5.1.0+dfsg-2) ... Removing python3-charset-normalizer (3.0.1-2) ... Removing python3-idna (3.3-1) ... Removing python3-pkg-resources (66.1.1-1) ... Removing python3-urllib3 (1.26.12-1) ... Removing python3-six (1.16.0-4) ... Removing ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing python3 (3.11.2-1+b1) ... Removing python3.11 (3.11.2-6) ... Removing python3-minimal (3.11.2-1+b1) ... Removing python3.11-minimal (3.11.2-6) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing libpython3-stdlib:amd64 (3.11.2-1+b1) ... Removing libpython3.11-stdlib:amd64 (3.11.2-6) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Removing libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Removing libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Removing libncursesw6:amd64 (6.4-4) ... Removing libpython3.11-minimal:amd64 (3.11.2-6) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2-1.3) ... Removing libsqlite3-0:amd64 (3.40.1-2) ... Removing openssl (3.0.11-1~deb12u2) ... Removing libssl3:amd64 (3.0.11-1~deb12u2) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing media-types (10.0.0) ... Removing readline-common (8.2-1.3) ... Processing triggers for libc-bin (2.36-9+deb12u4) ... 2m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'remove', 'ca-certificates', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'docutils-common', 'fonts-glyphicons-halflings', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'libblas3:amd64', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgirepository-1.0-1:amd64', 'libglib2.0-0:amd64', 'libgssapi-krb5-2:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-bcrypt', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-colorama', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-distutils', 'python3-docutils', 'python3-fastjsonschema', 'python3-frozenlist', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-humanfriendly', 'python3-idna', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-lib2to3', 'python3-markupsafe', 'python3-marshmallow', 'python3-minimal', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pkg-resources', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-retry', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-stopit', 'python3-strictyaml', 'python3-tabulate', 'python3-throttler', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-uamqp', 'python3-urllib3', 'python3-wrapt', 'python3-yaml', 'python3-yarl', 'python3.11', 'python3.11-minimal', 'readline-common', 'sgml-base', 'xml-core', 'snakemake'] 2m37.9s INFO: Running scripts post_remove 2m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_remove_exceptions'] 2m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_remove_exceptions'] 2m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', 'ca-certificates', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'docutils-common', 'fonts-glyphicons-halflings', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'libblas3:amd64', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgirepository-1.0-1:amd64', 'libglib2.0-0:amd64', 'libgssapi-krb5-2:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-bcrypt', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-colorama', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-distutils', 'python3-docutils', 'python3-fastjsonschema', 'python3-frozenlist', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-humanfriendly', 'python3-idna', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-lib2to3', 'python3-markupsafe', 'python3-marshmallow', 'python3-minimal', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pkg-resources', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-retry', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-stopit', 'python3-strictyaml', 'python3-tabulate', 'python3-throttler', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-uamqp', 'python3-urllib3', 'python3-wrapt', 'python3-yaml', 'python3-yarl', 'python3.11', 'python3.11-minimal', 'readline-common', 'sgml-base', 'xml-core'] 2m38.2s DUMP: (Reading database ... 6119 files and directories currently installed.) Purging configuration files for ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove coinor-cbc which isn't installed dpkg: warning: ignoring request to remove coinor-libcbc3 which isn't installed dpkg: warning: ignoring request to remove coinor-libcgl1 which isn't installed dpkg: warning: ignoring request to remove coinor-libclp1 which isn't installed dpkg: warning: ignoring request to remove coinor-libcoinutils3v5 which isn't installed dpkg: warning: ignoring request to remove coinor-libosi1v5 which isn't installed Purging configuration files for docutils-common (0.19+dfsg-6) ... dpkg: warning: ignoring request to remove fonts-glyphicons-halflings which isn't installed dpkg: warning: ignoring request to remove gir1.2-glib-2.0 which isn't installed Purging configuration files for git (1:2.39.2-1.1) ... dpkg: warning: ignoring request to remove git-man which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove liberror-perl which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgirepository-1.0-1 which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.74.6-2) ... Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... dpkg: warning: ignoring request to remove libjs-bootstrap which isn't installed Purging configuration files for libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.2-6) ... dpkg: warning: ignoring request to remove libpython3.11-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 librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsodium23 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed Purging configuration files for libtirpc-common (1.3.3+ds-1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed Purging configuration files for media-types (10.0.0) ... Purging configuration files for openssl (3.0.11-1~deb12u2) ... Purging configuration files for perl (5.36.0-7+deb12u1) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed Purging configuration files for python3 (3.11.2-1+b1) ... dpkg: warning: ignoring request to remove python3-adal which isn't installed dpkg: warning: ignoring request to remove python3-aiohttp which isn't installed dpkg: warning: ignoring request to remove python3-aiosignal which isn't installed dpkg: warning: ignoring request to remove python3-appdirs which isn't installed dpkg: warning: ignoring request to remove python3-async-timeout which isn't installed dpkg: warning: ignoring request to remove python3-attr which isn't installed dpkg: warning: ignoring request to remove python3-avro which isn't installed dpkg: warning: ignoring request to remove python3-azure which isn't installed dpkg: warning: ignoring request to remove python3-azure-storage which isn't installed dpkg: warning: ignoring request to remove python3-bcrypt which isn't installed dpkg: warning: ignoring request to remove python3-blinker which isn't installed dpkg: warning: ignoring request to remove python3-boto3 which isn't installed dpkg: warning: ignoring request to remove python3-botocore which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-cffi-backend which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-charset-normalizer which isn't installed dpkg: warning: ignoring request to remove python3-colorama which isn't installed dpkg: warning: ignoring request to remove python3-configargparse which isn't installed dpkg: warning: ignoring request to remove python3-connection-pool which isn't installed dpkg: warning: ignoring request to remove python3-cryptography which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-datrie which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-docutils which isn't installed dpkg: warning: ignoring request to remove python3-fastjsonschema which isn't installed dpkg: warning: ignoring request to remove python3-frozenlist which isn't installed dpkg: warning: ignoring request to remove python3-gi which isn't installed dpkg: warning: ignoring request to remove python3-git which isn't installed dpkg: warning: ignoring request to remove python3-gitdb which isn't installed dpkg: warning: ignoring request to remove python3-humanfriendly which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-isodate which isn't installed dpkg: warning: ignoring request to remove python3-jinja2 which isn't installed dpkg: warning: ignoring request to remove python3-jmespath which isn't installed Purging configuration files for python3-jsonschema (4.10.3-1) ... dpkg: warning: ignoring request to remove python3-jupyter-core which isn't installed dpkg: warning: ignoring request to remove python3-jwt which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-markupsafe which isn't installed dpkg: warning: ignoring request to remove python3-marshmallow which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-msal which isn't installed dpkg: warning: ignoring request to remove python3-msal-extensions which isn't installed dpkg: warning: ignoring request to remove python3-msrest which isn't installed dpkg: warning: ignoring request to remove python3-msrestazure which isn't installed dpkg: warning: ignoring request to remove python3-multidict which isn't installed dpkg: warning: ignoring request to remove python3-nacl which isn't installed dpkg: warning: ignoring request to remove python3-nbformat which isn't installed dpkg: warning: ignoring request to remove python3-oauthlib which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-paramiko which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-portalocker which isn't installed dpkg: warning: ignoring request to remove python3-psutil which isn't installed dpkg: warning: ignoring request to remove python3-pulp which isn't installed dpkg: warning: ignoring request to remove python3-py which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pyrsistent which isn't installed dpkg: warning: ignoring request to remove python3-ratelimiter which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-requests-oauthlib which isn't installed dpkg: warning: ignoring request to remove python3-retry which isn't installed dpkg: warning: ignoring request to remove python3-roman 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-s3transfer which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-smart-open which isn't installed dpkg: warning: ignoring request to remove python3-smmap which isn't installed dpkg: warning: ignoring request to remove python3-stopit which isn't installed dpkg: warning: ignoring request to remove python3-strictyaml which isn't installed dpkg: warning: ignoring request to remove python3-tabulate which isn't installed dpkg: warning: ignoring request to remove python3-throttler which isn't installed dpkg: warning: ignoring request to remove python3-toposort which isn't installed dpkg: warning: ignoring request to remove python3-tqdm which isn't installed dpkg: warning: ignoring request to remove python3-traitlets which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-uamqp which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3-wrapt which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3-yarl which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.2-6) ... Purging configuration files for readline-common (8.2-1.3) ... Purging configuration files for sgml-base (1.31) ... Purging configuration files for xml-core (0.18+nmu1) ... 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', 'ca-certificates', 'coinor-cbc', 'coinor-libcbc3:amd64', 'coinor-libcgl1:amd64', 'coinor-libclp1:amd64', 'coinor-libcoinutils3v5:amd64', 'coinor-libosi1v5:amd64', 'docutils-common', 'fonts-glyphicons-halflings', 'gir1.2-glib-2.0:amd64', 'git', 'git-man', 'libblas3:amd64', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdatrie1:amd64', 'liberror-perl', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgirepository-1.0-1:amd64', 'libglib2.0-0:amd64', 'libgssapi-krb5-2:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsodium23:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-adal', 'python3-aiohttp', 'python3-aiosignal', 'python3-appdirs', 'python3-async-timeout', 'python3-attr', 'python3-avro', 'python3-azure', 'python3-azure-storage', 'python3-bcrypt', 'python3-blinker', 'python3-boto3', 'python3-botocore', 'python3-certifi', 'python3-cffi-backend:amd64', 'python3-chardet', 'python3-charset-normalizer', 'python3-colorama', 'python3-configargparse', 'python3-connection-pool', 'python3-cryptography', 'python3-dateutil', 'python3-datrie:amd64', 'python3-decorator', 'python3-distutils', 'python3-docutils', 'python3-fastjsonschema', 'python3-frozenlist', 'python3-gi', 'python3-git', 'python3-gitdb', 'python3-humanfriendly', 'python3-idna', 'python3-isodate', 'python3-jinja2', 'python3-jmespath', 'python3-jsonschema', 'python3-jupyter-core', 'python3-jwt', 'python3-lib2to3', 'python3-markupsafe', 'python3-marshmallow', 'python3-minimal', 'python3-msal', 'python3-msal-extensions', 'python3-msrest', 'python3-msrestazure', 'python3-multidict', 'python3-nacl', 'python3-nbformat', 'python3-oauthlib', 'python3-packaging', 'python3-paramiko', 'python3-pkg-resources', 'python3-portalocker', 'python3-psutil', 'python3-pulp', 'python3-py', 'python3-pyparsing', 'python3-pyrsistent:amd64', 'python3-ratelimiter', 'python3-requests', 'python3-requests-oauthlib', 'python3-retry', 'python3-roman', 'python3-ruamel.yaml', 'python3-ruamel.yaml.clib:amd64', 'python3-s3transfer', 'python3-six', 'python3-smart-open', 'python3-smmap', 'python3-stopit', 'python3-strictyaml', 'python3-tabulate', 'python3-throttler', 'python3-toposort', 'python3-tqdm', 'python3-traitlets', 'python3-typing-extensions', 'python3-uamqp', 'python3-urllib3', 'python3-wrapt', 'python3-yaml', 'python3-yarl', 'python3.11', 'python3.11-minimal', 'readline-common', 'sgml-base', 'xml-core'] 2m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', 'snakemake'] 2m38.2s DUMP: dpkg: warning: ignoring request to remove snakemake which isn't installed 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', 'snakemake'] 2m38.2s INFO: Running scripts post_purge 2m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_purge_exceptions'] 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_purge_exceptions'] 2m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', '--pending'] 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--purge', '--pending'] 2m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--remove', '--pending'] 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg', '--remove', '--pending'] 2m38.2s INFO: Running scripts post_test 2m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_test_exceptions'] 2m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'tmp/scripts/post_test_exceptions'] 2m38.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 2m38.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 2m39.1s DEBUG: No broken symlinks as far as we can find. 2m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-divert', '--list'] 2m39.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 2m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'dpkg-divert', '--list'] 2m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'clean'] 2m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6', 'apt-get', 'clean'] 2m39.2s DEBUG: Recording chroot state 2m39.7s INFO: PASS: Installation and purging test. 2m40.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/shm'] 2m40.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/shm'] 2m40.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/console'] 2m40.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/console'] 2m40.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/ptmx'] 2m40.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/ptmx'] 2m40.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts'] 2m40.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/dev/pts'] 2m40.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/proc'] 2m40.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6/proc'] 2m40.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 2m40.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp9ic3xmm6'] 2m40.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp9ic3xmm6 2m40.2s INFO: PASS: All tests. 2m40.2s INFO: piuparts run ends. ret=0 End: 2024-04-01 08:29:51 GMT