Start: 2023-09-15 16:34:00 GMT Package: macsyfinder Version: 2.1.2-1 Installed-Size: 37163 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-certifi, python3-colorama, python3-colorlog, python3-networkx, python3-packaging, python3-pandas, python3-yaml, python3:any, libjs-sphinxdoc (>= 5.2), sphinx-rtd-theme-common (>= 1.3.0+dfsg), hmmer, ncbi-blast+, libjs-jquery, libjs-underscore Description: detection of macromolecular systems in protein datasets Homepage: https://github.com/gem-pasteur/macsyfinder Built-Using: sphinx (= 5.3.0-7) Description-md5: 0b9b635e7d46ea6cf9f81df42e76fb60 Section: science Priority: optional Filename: pool/main/m/macsyfinder/macsyfinder_2.1.2-1_amd64.deb Size: 14435200 MD5sum: 445ec14a4a57fbc69539768a28a58372 SHA256: e4c68708119eac7d76532deda3ccc2a0c431e8a2a027c6c03dc72013ded6b3a9 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --merged-usr -i /usr/lib32/ -i /usr/libx32/ --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt macsyfinder=2.1.2-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.8~202306121314~1.1.7-9-g57dfbde6 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --merged-usr -i /usr/lib32/ -i /usr/libx32/ --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt macsyfinder=2.1.2-1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-25-amd64 #1 SMP Debian 5.10.191-1 (2023-08-16) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp8n7waytn 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp8n7waytn 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m2.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/proc'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/proc'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts'] 0m2.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/ptmx'] 0m2.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/ptmx'] 0m2.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/console'] 0m2.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/console'] 0m2.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/shm'] 0m2.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/shm'] 0m2.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m2.2s DEBUG: Created policy-rc.d and chmodded it. 0m2.2s DEBUG: Created resolv.conf. 0m2.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp8n7waytn/tmp/scripts/ 0m2.2s INFO: Running scripts post_chroot_unpack 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'update'] 0m6.0s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [195 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9603 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7024 kB] Fetched 16.8 MB in 3s (5562 kB/s) Reading package lists... 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'update'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', '-yf', 'dist-upgrade'] 0m8.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: gcc-13-base libc-bin libc6 libgcc-s1 libstdc++6 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4146 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 gcc-13-base amd64 13.2.0-4 [39.8 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 13.2.0-4 [57.7 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 13.2.0-4 [694 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.37-9 [2754 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.37-9 [601 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4146 kB in 0s (54.4 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5203 files and directories currently installed.) Preparing to unpack .../gcc-13-base_13.2.0-4_amd64.deb ... Unpacking gcc-13-base:amd64 (13.2.0-4) over (13.2.0-3) ... Setting up gcc-13-base:amd64 (13.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5203 files and directories currently installed.) Preparing to unpack .../libgcc-s1_13.2.0-4_amd64.deb ... Unpacking libgcc-s1:amd64 (13.2.0-4) over (13.2.0-3) ... Setting up libgcc-s1:amd64 (13.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5203 files and directories currently installed.) Preparing to unpack .../libstdc++6_13.2.0-4_amd64.deb ... Unpacking libstdc++6:amd64 (13.2.0-4) over (13.2.0-3) ... Setting up libstdc++6:amd64 (13.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5203 files and directories currently installed.) Preparing to unpack .../libc6_2.37-9_amd64.deb ... Unpacking libc6:amd64 (2.37-9) over (2.37-8) ... Setting up libc6:amd64 (2.37-9) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5203 files and directories currently installed.) Preparing to unpack .../libc-bin_2.37-9_amd64.deb ... Unpacking libc-bin (2.37-9) over (2.37-8) ... Setting up libc-bin (2.37-9) ... 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', '-yf', 'dist-upgrade'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.6s DUMP: 10972b6a05ff6ceafd612ef11005bdc3 - 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.6s INFO: Running scripts post_setup 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_dummy_users'] 0m9.8s 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 0m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_dummy_users'] 0m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_forbid_home'] 0m9.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_forbid_home'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_force-unsafe-io'] 0m9.9s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_force-unsafe-io'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_minimize'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_minimize'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_squeeze-backports'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_squeeze-backports'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_zz_backports'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_setup_zz_backports'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'clean'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'clean'] 0m9.9s DEBUG: Recording chroot state 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.4s DUMP: install ok installed apt apt 2.7.3 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b4 install ok installed bsdutils bsdutils 1:2.39.2-1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.12 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.22.0 install ok installed e2fsprogs e2fsprogs 1.47.0-2+b1 install ok installed findutils findutils 4.9.0-5 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-4 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.11-3 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 2.7.3 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:3.1.1-1 install ok installed libblkid1:amd64 libblkid1 2.39.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.37-9 install ok installed libc6:amd64 libc6 2.37-9 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+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-2 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 13.2.0-4 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.2-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2 install ok installed libgnutls30:amd64 libgnutls30 3.8.1-4+b1 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-2 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.4-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.4-0.1 install ok installed libmd0:amd64 libmd0 1.1.0-1 install ok installed libmount1:amd64 libmount1 2.39.2-1 install ok installed libnettle8:amd64 libnettle8 3.9.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.0-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-7 install ok installed libpam-runtime libpam-runtime 1.5.2-7 install ok installed libpam0g:amd64 libpam0g 1.5.2-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.5-1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1 install ok installed libsepol2:amd64 libsepol2 3.5-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.2-1 install ok installed libss2:amd64 libss2 1.47.0-2+b1 install ok installed libstdc++6:amd64 libstdc++6 13.2.0-4 install ok installed libsystemd0:amd64 libsystemd0 254.1-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3 install ok installed libtinfo6:amd64 libtinfo6 6.4+20230625-2 install ok installed libudev1:amd64 libudev1 254.1-3 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libuuid1:amd64 libuuid1 2.39.2-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-1 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2+b1 install ok installed mawk mawk 1.3.4.20230808-1 install ok installed mount mount 2.39.2-1 install ok installed ncurses-base ncurses-base 6.4+20230625-2 install ok installed ncurses-bin ncurses-bin 6.4+20230625-2 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-9 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.07-1 install ok installed tar tar 1.34+dfsg-1.2 install ok installed tzdata tzdata 2023c-10 install ok installed usr-is-merged usr-is-merged 37 install ok installed util-linux util-linux 2.39.2-1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-3 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-divert', '--list'] 0m10.4s DUMP: local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-divert', '--list'] 0m10.4s INFO: Running scripts is_testable 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/is_testable_uninstallable'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/is_testable_uninstallable'] 0m10.4s INFO: apt-cache does not know about any of the requested packages 0m10.4s INFO: Running scripts pre_test 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_test_exceptions'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_test_exceptions'] 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_test_root_password'] 0m10.5s DUMP: New password: Retype new password: passwd: password updated successfully 0m10.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_test_root_password'] 0m10.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m10.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m11.2s DEBUG: No broken symlinks as far as we can find. 0m11.2s INFO: Running scripts pre_install 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_database-server'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_database-server'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_exceptions'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_exceptions'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_extras'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_extras'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m11.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m11.9s DEBUG: No broken symlinks as far as we can find. 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-cache', 'policy'] 0m12.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m12.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-cache', 'policy'] 0m12.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-cache', 'policy', 'macsyfinder'] 0m12.9s DUMP: macsyfinder: Installed: (none) Candidate: 2.1.2-1 Version table: 2.1.2-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-cache', 'policy', 'macsyfinder'] 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', '-y', 'install', 'macsyfinder=2.1.2-1'] 0m39.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ca-certificates fonts-font-awesome fonts-lato hmmer libblas3 libdivsufsort3 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libperl5.36 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 libsqlite3-0 libssl3 libtirpc-common libtirpc3 libyaml-0-2 media-types ncbi-blast+ ncbi-data openssl perl perl-modules-5.36 python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml python3.11 python3.11-minimal readline-common sphinx-rtd-theme-common Suggested packages: hmmer-doc gdbm-l10n 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 gcc gfortran python3-dev python3-pytest python-pandas-doc python3-statsmodels python3-setuptools python3.11-venv python3.11-doc binutils binfmt-support readline-doc Recommended packages: javascript-common krb5-locales libgpm2 netbase python3-gdal python3-matplotlib python3-pydot python3-pygraphviz python3-scipy python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml python3-tables python3-jinja2 python3-numba The following NEW packages will be installed: ca-certificates fonts-font-awesome fonts-lato hmmer libblas3 libdivsufsort3 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libperl5.36 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 libsqlite3-0 libssl3 libtirpc-common libtirpc3 libyaml-0-2 macsyfinder media-types ncbi-blast+ ncbi-data openssl perl perl-modules-5.36 python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml python3.11 python3.11-minimal readline-common sphinx-rtd-theme-common 0 upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 72.6 MB of archives. After this operation, 317 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 perl-modules-5.36 all 5.36.0-9 [2815 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libperl5.36 amd64 5.36.0-9 [4206 kB] Get:5 http://deb.debian.org/debian sid/main amd64 perl amd64 5.36.0-9 [239 kB] Get:6 http://deb.debian.org/debian sid/main amd64 fonts-lato all 2.0-2.1 [2696 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libssl3 amd64 3.0.10-1 [2014 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libpython3.11-minimal amd64 3.11.5-3 [815 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.5.0-2 [99.0 kB] Get:10 http://deb.debian.org/debian sid/main amd64 python3.11-minimal amd64 3.11.5-3 [2034 kB] Get:11 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.11.4-5+b1 [26.5 kB] Get:12 http://deb.debian.org/debian sid/main amd64 media-types all 10.1.0 [26.9 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.4+20230625-2 [134 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.20.1-4 [32.8 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.20.1-4 [79.4 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:17 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.20.1-4 [332 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-4 [134 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:22 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.43.1-1 [872 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libpython3.11-stdlib amd64 3.11.5-3 [1802 kB] Get:26 http://deb.debian.org/debian sid/main amd64 python3.11 amd64 3.11.5-3 [582 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.11.4-5+b1 [9492 B] Get:28 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.11.4-5+b1 [26.5 kB] Get:29 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.0.10-1 [1415 kB] Get:30 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20230311 [153 kB] Get:31 http://deb.debian.org/debian sid/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libdivsufsort3 amd64 2.0.1-5 [44.7 kB] Get:33 http://deb.debian.org/debian sid/main amd64 hmmer amd64 3.4+dfsg-2 [1062 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 13.2.0-4 [804 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 13.2.0-4 [131 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libjs-sphinxdoc all 5.3.0-7 [131 kB] Get:40 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:41 http://deb.debian.org/debian sid/main amd64 liblmdb0 amd64 0.9.31-1 [44.3 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libmbedcrypto7 amd64 2.28.4-1 [278 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libmbedx509-1 amd64 2.28.4-1 [128 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libmbedtls14 amd64 2.28.4-1 [164 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get:46 http://deb.debian.org/debian sid/main amd64 python3-certifi all 2022.9.24-1 [153 kB] Get:47 http://deb.debian.org/debian sid/main amd64 python3-colorama all 0.4.6-4 [36.2 kB] Get:48 http://deb.debian.org/debian sid/main amd64 python3-colorlog all 6.7.0-1 [26.5 kB] Get:49 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 68.1.2-1 [241 kB] Get:50 http://deb.debian.org/debian sid/main amd64 python3-networkx all 2.8.8-1 [1425 kB] Get:51 http://deb.debian.org/debian sid/main amd64 python3-packaging all 23.1-1 [37.4 kB] Get:52 http://deb.debian.org/debian sid/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get:53 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.8.2-3 [78.4 kB] Get:54 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB] Get:55 http://deb.debian.org/debian sid/main amd64 python3-tz all 2023.3-4 [30.8 kB] Get:56 http://deb.debian.org/debian sid/main amd64 python3-pandas-lib amd64 1.5.3+dfsg-6 [3515 kB] Get:57 http://deb.debian.org/debian sid/main amd64 python3-pandas all 1.5.3+dfsg-6 [2886 kB] Get:58 http://deb.debian.org/debian sid/main amd64 python3-yaml amd64 6.0.1-1 [119 kB] Get:59 http://deb.debian.org/debian sid/main amd64 sphinx-rtd-theme-common all 1.3.0+dfsg-1 [997 kB] Get:60 http://deb.debian.org/debian sid/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:61 http://deb.debian.org/debian sid/main amd64 ncbi-blast+ amd64 2.12.0+ds-4 [12.5 MB] Get:62 http://deb.debian.org/debian sid/main amd64 macsyfinder amd64 2.1.2-1 [14.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 72.6 MB in 1s (60.2 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 ... 5205 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-9_all.deb ... Unpacking perl-modules-5.36 (5.36.0-9) ... 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. Preparing to unpack .../2-libgdbm-compat4_1.23-3_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-3) ... Selecting previously unselected package libperl5.36:amd64. Preparing to unpack .../3-libperl5.36_5.36.0-9_amd64.deb ... Unpacking libperl5.36:amd64 (5.36.0-9) ... Selecting previously unselected package perl. Preparing to unpack .../4-perl_5.36.0-9_amd64.deb ... Unpacking perl (5.36.0-9) ... Selecting previously unselected package fonts-lato. Preparing to unpack .../5-fonts-lato_2.0-2.1_all.deb ... Unpacking fonts-lato (2.0-2.1) ... Selecting previously unselected package libssl3:amd64. Preparing to unpack .../6-libssl3_3.0.10-1_amd64.deb ... Unpacking libssl3:amd64 (3.0.10-1) ... Selecting previously unselected package libpython3.11-minimal:amd64. Preparing to unpack .../7-libpython3.11-minimal_3.11.5-3_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.5-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../8-libexpat1_2.5.0-2_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-2) ... 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Preparing to unpack .../14-libpython3.11-stdlib_3.11.5-3_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.5-3) ... Selecting previously unselected package python3.11. Preparing to unpack .../15-python3.11_3.11.5-3_amd64.deb ... Unpacking python3.11 (3.11.5-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../16-libpython3-stdlib_3.11.4-5+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.4-5+b1) ... Setting up python3-minimal (3.11.4-5+b1) ... Selecting previously unselected package python3. (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 ... 8072 files and directories currently installed.) Preparing to unpack .../00-python3_3.11.4-5+b1_amd64.deb ... Unpacking python3 (3.11.4-5+b1) ... Selecting previously unselected package openssl. Preparing to unpack .../01-openssl_3.0.10-1_amd64.deb ... Unpacking openssl (3.0.10-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../02-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... 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Selecting previously unselected package libjs-jquery. Preparing to unpack .../09-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../10-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../11-libjs-sphinxdoc_5.3.0-7_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-7) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../12-liblapack3_3.11.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.11.0-2) ... Selecting previously unselected package liblmdb0:amd64. Preparing to unpack .../13-liblmdb0_0.9.31-1_amd64.deb ... Unpacking liblmdb0:amd64 (0.9.31-1) ... Selecting previously unselected package libmbedcrypto7:amd64. Preparing to unpack .../14-libmbedcrypto7_2.28.4-1_amd64.deb ... Unpacking libmbedcrypto7:amd64 (2.28.4-1) ... Selecting previously unselected package libmbedx509-1:amd64. Preparing to unpack .../15-libmbedx509-1_2.28.4-1_amd64.deb ... Unpacking libmbedx509-1:amd64 (2.28.4-1) ... Selecting previously unselected package libmbedtls14:amd64. Preparing to unpack .../16-libmbedtls14_2.28.4-1_amd64.deb ... Unpacking libmbedtls14:amd64 (2.28.4-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../17-libyaml-0-2_0.2.5-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../18-python3-certifi_2022.9.24-1_all.deb ... Unpacking python3-certifi (2022.9.24-1) ... Selecting previously unselected package python3-colorama. Preparing to unpack .../19-python3-colorama_0.4.6-4_all.deb ... Unpacking python3-colorama (0.4.6-4) ... Selecting previously unselected package python3-colorlog. Preparing to unpack .../20-python3-colorlog_6.7.0-1_all.deb ... Unpacking python3-colorlog (6.7.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../21-python3-pkg-resources_68.1.2-1_all.deb ... Unpacking python3-pkg-resources (68.1.2-1) ... Selecting previously unselected package python3-networkx. Preparing to unpack .../22-python3-networkx_2.8.8-1_all.deb ... Unpacking python3-networkx (2.8.8-1) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../23-python3-packaging_23.1-1_all.deb ... Unpacking python3-packaging (23.1-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../24-python3-six_1.16.0-4_all.deb ... Unpacking python3-six (1.16.0-4) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../25-python3-dateutil_2.8.2-3_all.deb ... Unpacking python3-dateutil (2.8.2-3) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../26-python3-numpy_1%3a1.24.2-1_amd64.deb ... Unpacking python3-numpy (1:1.24.2-1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../27-python3-tz_2023.3-4_all.deb ... Unpacking python3-tz (2023.3-4) ... Selecting previously unselected package python3-pandas-lib:amd64. Preparing to unpack .../28-python3-pandas-lib_1.5.3+dfsg-6_amd64.deb ... Unpacking python3-pandas-lib:amd64 (1.5.3+dfsg-6) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../29-python3-pandas_1.5.3+dfsg-6_all.deb ... Unpacking python3-pandas (1.5.3+dfsg-6) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../30-python3-yaml_6.0.1-1_amd64.deb ... Unpacking python3-yaml (6.0.1-1) ... Selecting previously unselected package sphinx-rtd-theme-common. Preparing to unpack .../31-sphinx-rtd-theme-common_1.3.0+dfsg-1_all.deb ... Unpacking sphinx-rtd-theme-common (1.3.0+dfsg-1) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../32-ncbi-data_6.1.20170106+dfsg1-10_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg1-10) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../33-ncbi-blast+_2.12.0+ds-4_amd64.deb ... Unpacking ncbi-blast+ (2.12.0+ds-4) ... Selecting previously unselected package macsyfinder. Preparing to unpack .../34-macsyfinder_2.1.2-1_amd64.deb ... Unpacking macsyfinder (2.1.2-1) ... Setting up media-types (10.1.0) ... Setting up liblmdb0:amd64 (0.9.31-1) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up fonts-lato (2.0-2.1) ... Setting up libyaml-0-2:amd64 (0.2.5-1) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libsqlite3-0:amd64 (3.43.1-1) ... Setting up libgomp1:amd64 (13.2.0-4) ... Setting up libkrb5support0:amd64 (1.20.1-4) ... Setting up perl-modules-5.36 (5.36.0-9) ... 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 libmbedcrypto7:amd64 (2.28.4-1) ... Setting up libncursesw6:amd64 (6.4+20230625-2) ... Setting up libk5crypto3:amd64 (1.20.1-4) ... Setting up libgfortran5:amd64 (13.2.0-4) ... Setting up libkrb5-3:amd64 (1.20.1-4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libdivsufsort3:amd64 (2.0.1-5) ... Setting up openssl (3.0.10-1) ... Setting up readline-common (8.2-1.3) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (1.3.0+dfsg-1) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 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 libmbedx509-1:amd64 (2.28.4-1) ... Setting up libmbedtls14:amd64 (2.28.4-1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libgssapi-krb5-2:amd64 (1.20.1-4) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libjs-sphinxdoc (5.3.0-7) ... Setting up hmmer (3.4+dfsg-2) ... Setting up libperl5.36:amd64 (5.36.0-9) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up perl (5.36.0-9) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libpython3.11-stdlib:amd64 (3.11.5-3) ... Setting up libpython3-stdlib:amd64 (3.11.4-5+b1) ... Setting up python3.11 (3.11.5-3) ... Setting up python3 (3.11.4-5+b1) ... Setting up python3-tz (2023.3-4) ... Setting up ncbi-blast+ (2.12.0+ds-4) ... Setting up python3-six (1.16.0-4) ... Setting up python3-packaging (23.1-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-dateutil (2.8.2-3) ... Setting up python3-pkg-resources (68.1.2-1) ... Setting up python3-colorama (0.4.6-4) ... Setting up python3-colorlog (6.7.0-1) ... Setting up python3-yaml (6.0.1-1) ... Setting up python3-networkx (2.8.8-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-pandas-lib:amd64 (1.5.3+dfsg-6) ... Setting up python3-pandas (1.5.3+dfsg-6) ... Setting up macsyfinder (2.1.2-1) ... Processing triggers for libc-bin (2.37-9) ... 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. 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', '-y', 'install', 'macsyfinder=2.1.2-1'] 0m39.7s INFO: Running scripts post_install 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_install_exceptions'] 0m39.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_install_exceptions'] 0m39.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m40.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m41.9s DEBUG: No broken symlinks as far as we can find. 0m41.9s INFO: /bin converted to /usr/bin by /usr merge 0m41.9s INFO: /lib converted to /usr/lib by /usr merge 0m41.9s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m41.9s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m41.9s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m41.9s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m41.9s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m41.9s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m41.9s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m41.9s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m41.9s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m41.9s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m41.9s INFO: /sbin converted to /usr/sbin by /usr merge 0m42.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', '-ac', '--ignore-obsolete'] 0m44.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', '-ac', '--ignore-obsolete'] 0m44.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m44.3s DUMP: 0.15.6 0m44.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m44.3s INFO: Running adequate version 0.15.6 now. 0m44.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'macsyfinder'] 0m44.4s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'macsyfinder'] 0m44.4s INFO: Running scripts pre_remove 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m44.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m44.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m46.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m46.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m46.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m46.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m46.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m46.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_exceptions'] 0m46.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/pre_remove_exceptions'] 0m46.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m46.5s DUMP: install ok installed apt apt 2.7.3 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b4 install ok installed bsdutils bsdutils 1:2.39.2-1 install ok installed ca-certificates ca-certificates 20230311 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.12 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.22.0 install ok installed e2fsprogs e2fsprogs 1.47.0-2+b1 install ok installed findutils findutils 4.9.0-5 install ok installed fonts-font-awesome fonts-font-awesome 5.0.10+really4.7.0~dfsg-4.1 install ok installed fonts-lato fonts-lato 2.0-2.1 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-4 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.11-3 install ok installed gzip gzip 1.12-1 install ok installed hmmer hmmer 3.4+dfsg-2 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 2.7.3 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:3.1.1-1 install ok installed libblas3:amd64 libblas3 3.11.0-2 install ok installed libblkid1:amd64 libblkid1 2.39.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.37-9 install ok installed libc6:amd64 libc6 2.37-9 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+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-2 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libdivsufsort3:amd64 libdivsufsort3 2.0.1-5 install ok installed libexpat1:amd64 libexpat1 2.5.0-2 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 13.2.0-4 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.2-2 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 13.2.0-4 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2 install ok installed libgnutls30:amd64 libgnutls30 3.8.1-4+b1 install ok installed libgomp1:amd64 libgomp1 13.2.0-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-4 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.4-1+b1 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 5.3.0-7 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-4 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-4 install ok installed liblapack3:amd64 liblapack3 3.11.0-2 install ok installed liblmdb0:amd64 liblmdb0 0.9.31-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.4-0.1 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.4-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.4-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.4-1 install ok installed libmd0:amd64 libmd0 1.1.0-1 install ok installed libmount1:amd64 libmount1 2.39.2-1 install ok installed libncursesw6:amd64 libncursesw6 6.4+20230625-2 install ok installed libnettle8:amd64 libnettle8 3.9.1-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.0-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-7 install ok installed libpam-runtime libpam-runtime 1.5.2-7 install ok installed libpam0g:amd64 libpam0g 1.5.2-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-9 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.4-5+b1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.5-3 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.5-3 install ok installed libreadline8:amd64 libreadline8 8.2-1.3 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.5-1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1 install ok installed libsepol2:amd64 libsepol2 3.5-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.2-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.43.1-1 install ok installed libss2:amd64 libss2 1.47.0-2+b1 install ok installed libssl3:amd64 libssl3 3.0.10-1 install ok installed libstdc++6:amd64 libstdc++6 13.2.0-4 install ok installed libsystemd0:amd64 libsystemd0 254.1-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3 install ok installed libtinfo6:amd64 libtinfo6 6.4+20230625-2 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 254.1-3 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libuuid1:amd64 libuuid1 2.39.2-1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-1 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-1 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2+b1 install ok installed macsyfinder macsyfinder 2.1.2-1 install ok installed mawk mawk 1.3.4.20230808-1 install ok installed media-types media-types 10.1.0 install ok installed mount mount 2.39.2-1 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-4 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-10 install ok installed ncurses-base ncurses-base 6.4+20230625-2 install ok installed ncurses-bin ncurses-bin 6.4+20230625-2 install ok installed openssl openssl 3.0.10-1 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl perl 5.36.0-9 install ok installed perl-base perl-base 5.36.0-9 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-9 install ok installed python3 python3 3.11.4-5+b1 install ok installed python3-certifi python3-certifi 2022.9.24-1 install ok installed python3-colorama python3-colorama 0.4.6-4 install ok installed python3-colorlog python3-colorlog 6.7.0-1 install ok installed python3-dateutil python3-dateutil 2.8.2-3 install ok installed python3-minimal python3-minimal 3.11.4-5+b1 install ok installed python3-networkx python3-networkx 2.8.8-1 install ok installed python3-numpy python3-numpy 1:1.24.2-1 install ok installed python3-packaging python3-packaging 23.1-1 install ok installed python3-pandas python3-pandas 1.5.3+dfsg-6 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 1.5.3+dfsg-6 install ok installed python3-pkg-resources python3-pkg-resources 68.1.2-1 install ok installed python3-six python3-six 1.16.0-4 install ok installed python3-tz python3-tz 2023.3-4 install ok installed python3-yaml python3-yaml 6.0.1-1 install ok installed python3.11 python3.11 3.11.5-3 install ok installed python3.11-minimal python3.11-minimal 3.11.5-3 install ok installed readline-common readline-common 8.2-1.3 install ok installed sed sed 4.9-1 install ok installed sphinx-rtd-theme-common sphinx-rtd-theme-common 1.3.0+dfsg-1 install ok installed sysvinit-utils sysvinit-utils 3.07-1 install ok installed tar tar 1.34+dfsg-1.2 install ok installed tzdata tzdata 2023c-10 install ok installed usr-is-merged usr-is-merged 37 install ok installed util-linux util-linux 2.39.2-1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-3 0m46.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m46.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'remove', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-six', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'macsyfinder'] 0m50.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates fonts-font-awesome fonts-lato hmmer libblas3 libdivsufsort3 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libperl5.36 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 libsqlite3-0 libssl3 libtirpc-common libtirpc3 libyaml-0-2 macsyfinder media-types ncbi-blast+ ncbi-data openssl perl perl-modules-5.36 python3 python3-certifi python3-colorama python3-colorlog python3-dateutil python3-minimal python3-networkx python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-six python3-tz python3-yaml python3.11 python3.11-minimal readline-common sphinx-rtd-theme-common 0 upgraded, 0 newly installed, 62 to remove and 0 not upgraded. After this operation, 317 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 ... 13146 files and directories currently installed.) Removing macsyfinder (2.1.2-1) ... Removing python3-certifi (2022.9.24-1) ... Removing ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing sphinx-rtd-theme-common (1.3.0+dfsg-1) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing fonts-lato (2.0-2.1) ... Removing hmmer (3.4+dfsg-2) ... Removing python3-pandas (1.5.3+dfsg-6) ... Removing python3-pandas-lib:amd64 (1.5.3+dfsg-6) ... Removing python3-numpy (1:1.24.2-1) ... Removing liblapack3:amd64 (3.11.0-2) ... Removing libblas3:amd64 (3.11.0-2) ... Removing libdivsufsort3:amd64 (2.0.1-5) ... Removing python3-yaml (6.0.1-1) ... Removing python3-dateutil (2.8.2-3) ... Removing python3-six (1.16.0-4) ... Removing ncbi-blast+ (2.12.0+ds-4) ... Removing python3-networkx (2.8.8-1) ... Removing python3-pkg-resources (68.1.2-1) ... Removing perl (5.36.0-9) ... Removing libperl5.36:amd64 (5.36.0-9) ... Removing libgdbm-compat4:amd64 (1.23-3) ... Removing libgdbm6:amd64 (1.23-3) ... Removing libgfortran5:amd64 (13.2.0-4) ... Removing libgomp1:amd64 (13.2.0-4) ... Removing libjs-sphinxdoc (5.3.0-7) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Removing liblmdb0:amd64 (0.9.31-1) ... Removing libmbedtls14:amd64 (2.28.4-1) ... Removing libmbedx509-1:amd64 (2.28.4-1) ... Removing libmbedcrypto7:amd64 (2.28.4-1) ... Removing openssl (3.0.10-1) ... Removing libyaml-0-2:amd64 (0.2.5-1) ... Removing ncbi-data (6.1.20170106+dfsg1-10) ... Removing perl-modules-5.36 (5.36.0-9) ... Removing python3-colorama (0.4.6-4) ... Removing python3-colorlog (6.7.0-1) ... Removing python3-packaging (23.1-1) ... Removing python3-tz (2023.3-4) ... Removing python3 (3.11.4-5+b1) ... Removing python3.11 (3.11.5-3) ... Removing python3-minimal (3.11.4-5+b1) ... Removing python3.11-minimal (3.11.5-3) ... Removing libexpat1:amd64 (2.5.0-2) ... Removing libpython3-stdlib:amd64 (3.11.4-5+b1) ... Removing libpython3.11-stdlib:amd64 (3.11.5-3) ... 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 (1.20.1-4) ... Removing libkrb5-3:amd64 (1.20.1-4) ... Removing libk5crypto3:amd64 (1.20.1-4) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-4) ... Removing libncursesw6:amd64 (6.4+20230625-2) ... Removing libpython3.11-minimal:amd64 (3.11.5-3) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2-1.3) ... Removing libsqlite3-0:amd64 (3.43.1-1) ... Removing libssl3:amd64 (3.0.10-1) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing media-types (10.1.0) ... Removing readline-common (8.2-1.3) ... Processing triggers for libc-bin (2.37-9) ... 0m50.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'remove', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-six', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'readline-common', 'sphinx-rtd-theme-common', 'macsyfinder'] 0m50.8s INFO: Running scripts post_remove 0m50.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_remove_exceptions'] 0m50.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_remove_exceptions'] 0m50.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-six', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'readline-common', 'sphinx-rtd-theme-common'] 0m51.1s DUMP: (Reading database ... 5219 files and directories currently installed.) Purging configuration files for ca-certificates (20230311) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove hmmer which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libdivsufsort3 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 libgomp1 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-4) ... Purging configuration files for libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 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 libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.5-3) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove 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 (10.1.0) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-10) ... Purging configuration files for openssl (3.0.10-1) ... Purging configuration files for perl (5.36.0-9) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed Purging configuration files for python3 (3.11.4-5+b1) ... dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-colorama which isn't installed dpkg: warning: ignoring request to remove python3-colorlog which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.5-3) ... Purging configuration files for readline-common (8.2-1.3) ... dpkg: warning: ignoring request to remove sphinx-rtd-theme-common which isn't installed 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', 'ca-certificates', 'fonts-font-awesome', 'fonts-lato', 'hmmer', 'libblas3:amd64', 'libdivsufsort3:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libperl5.36:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libyaml-0-2:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'openssl', 'perl', 'perl-modules-5.36', 'python3', 'python3-certifi', 'python3-colorama', 'python3-colorlog', 'python3-dateutil', 'python3-minimal', 'python3-networkx', 'python3-numpy', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pkg-resources', 'python3-six', 'python3-tz', 'python3-yaml', 'python3.11', 'python3.11-minimal', 'readline-common', 'sphinx-rtd-theme-common'] 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', 'macsyfinder'] 0m51.1s DUMP: (Reading database ... 5206 files and directories currently installed.) Purging configuration files for macsyfinder (2.1.2-1) ... 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', 'macsyfinder'] 0m51.1s INFO: Running scripts post_purge 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_purge_exceptions'] 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_purge_exceptions'] 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', '--pending'] 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--purge', '--pending'] 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--remove', '--pending'] 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg', '--remove', '--pending'] 0m51.1s INFO: Running scripts post_test 0m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_test_exceptions'] 0m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'tmp/scripts/post_test_exceptions'] 0m51.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m51.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m51.9s DEBUG: No broken symlinks as far as we can find. 0m51.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-divert', '--list'] 0m51.9s DUMP: local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib 0m51.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'dpkg-divert', '--list'] 0m51.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'clean'] 0m51.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8n7waytn', 'apt-get', 'clean'] 0m51.9s DEBUG: Recording chroot state 0m52.4s INFO: PASS: Installation and purging test. 0m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/shm'] 0m52.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/shm'] 0m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/console'] 0m52.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/console'] 0m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/ptmx'] 0m52.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/ptmx'] 0m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts'] 0m52.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/dev/pts'] 0m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/proc'] 0m52.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8n7waytn/proc'] 0m52.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m52.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp8n7waytn'] 0m52.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp8n7waytn 0m52.9s INFO: PASS: All tests. 0m52.9s INFO: piuparts run ends. ret=0 End: 2023-09-15 16:34:54 GMT