Start: 2023-03-22 19:47:33 GMT [wheezy] Package: python-biopython Version: 1.59-1 Installed-Size: 5786 Maintainer: Debian Med Packaging Team Architecture: amd64 Replaces: python2.3-biopython (<< 1.42-1), python2.4-biopython (<< 1.42-1) Provides: python2.6-biopython, python2.7-biopython Depends: python (<< 2.8), python (>= 2.6), python-numpy (>= 1:1.4.1), python-numpy-abi9, python-support (>= 0.90.0), libc6 (>= 2.2.5), python-reportlab Recommends: python-biopython-doc (= 1.59-1) Suggests: python-tk, wise, muscle, clustalw, mafft, emboss, blast2 Conflicts: python2.3-biopython (<< 1.42-1), python2.4-biopython (<< 1.42-1) Description: Python library for bioinformatics Homepage: http://biopython.org Description-md5: bacfe9ff423c05fc8056742f7e6c80cd Python-Version: 2.6, 2.7 Tag: devel::lang:python, devel::library, field::biology, field::biology:bioinformatics, implemented-in::python, role::devel-lib, role::shared-lib Section: python Priority: optional Filename: pool/main/p/python-biopython/python-biopython_1.59-1_amd64.deb Size: 1317216 MD5sum: 1b04d312cb0c32d7040bde9cc2a37c21 SHA1: 0376312a63bced640b7c1cac6eb1c9c90322fb13 SHA256: e5dc5516760be996e5ea55e56f91cfb088d69a40359133fac77d9fd2923a226a [jessie] Package: python-biopython Version: 1.64+dfsg-5 Installed-Size: 7703 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python-numpy (>= 1:1.8.0), python-numpy-abi9, python (>= 2.7), python (<< 2.8), libc6 (>= 2.14), python-reportlab Recommends: python-biopython-doc (= 1.64+dfsg-5), ncbi-blast+ Suggests: python-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle, phyml, prank, probcons, python-mysqldb, python-matplotlib, python-pil, python-rdflib, python-renderpm, python-psycopg2, raxml, samtools, t-coffee, wise (>= 2.4.1-16) Description: Python library for bioinformatics (implemented in Python 2) Homepage: http://biopython.org Description-md5: b6ff59e5efe2137d975d0bd2fda02ebd Tag: devel::lang:python, devel::library, field::biology, field::biology:bioinformatics, implemented-in::python, role::devel-lib, role::shared-lib Section: python Priority: optional Filename: pool/main/p/python-biopython/python-biopython_1.64+dfsg-5_amd64.deb Size: 1164674 MD5sum: 881146847dc476d138d365cf72f39adc SHA1: 95d4fecd1d80de1d3ecfb8a2beac8efe2144ed0c SHA256: 6192f5bec2f96668fc1932884ba2b8b67716ccdfe244a1920628fbd30efbc6df 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 --scriptsdir /etc/piuparts/scripts-jessie --skip-logrotatefiles-test --warn-on-debsums-errors --warn-on-install-over-symlink --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz -d wheezy -d jessie -S /srv/piuparts.debian.org/slave/refchroot/wheezy2jessie/reference-chroot-metadata.dat --apt python-biopython=1.64+dfsg-5 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --scriptsdir /etc/piuparts/scripts-jessie --skip-logrotatefiles-test --warn-on-debsums-errors --warn-on-install-over-symlink --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz -d wheezy -d jessie -S /srv/piuparts.debian.org/slave/refchroot/wheezy2jessie/reference-chroot-metadata.dat --apt python-biopython=1.64+dfsg-5 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp5zlz5rid 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp5zlz5rid 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m1.6s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/wheezy_amd64.tar.gz'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/proc'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/proc'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts'] 0m1.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/ptmx'] 0m1.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/ptmx'] 0m1.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/console'] 0m1.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/console'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/run/shm'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/run/shm'] 0m1.6s DEBUG: sources.list: deb http://archive.debian.org/debian wheezy main 0m1.6s DEBUG: Created policy-rc.d and chmodded it. 0m1.6s DEBUG: Created resolv.conf. 0m1.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp5zlz5rid/tmp/scripts/ 0m1.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts-jessie to /srv/piuparts.debian.org/tmp/tmp5zlz5rid/tmp/scripts/ 0m1.6s INFO: Running scripts post_chroot_unpack 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DUMP: Creating /etc/apt/apt.conf.d/unauthenticated-wheezy ... # The Release file is not getting updated. Acquire::Check-Valid-Until "false"; 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', 'apt-get', 'update'] 0m1.7s DUMP: E: Method http has died unexpectedly! E: Sub-process http received a segmentation fault. 0m1.7s ERROR: Command failed (status=100): ['chroot', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid', 'apt-get', 'update'] E: Method http has died unexpectedly! E: Sub-process http received a segmentation fault. 0m2.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/run/shm'] 0m2.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/run/shm'] 0m2.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/console'] 0m2.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/console'] 0m2.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/ptmx'] 0m2.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/ptmx'] 0m2.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts'] 0m2.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/dev/pts'] 0m2.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/proc'] 0m2.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid/proc'] 0m2.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid'] 0m2.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp5zlz5rid'] 0m2.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp5zlz5rid 0m2.2s ERROR: piuparts run ends. ret=1 End: 2023-03-22 19:47:35 GMT