Start: 2020-12-08 06:58:36 GMT [testing] Package: ncbi-epcr Source: epcr Version: 2.3.12-1-8 Installed-Size: 500 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2) Suggests: bioperl Description: Tool to test a DNA sequence for the presence of sequence tagged sites Homepage: https://www.ncbi.nlm.nih.gov/tools/epcr/ Description-md5: 6eb4b20b4e9fc4026571516f9268e389 Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, scope::utility, use::checking, use::searching, works-with-format::plaintext, works-with::TODO Section: science Priority: optional Filename: pool/main/e/epcr/ncbi-epcr_2.3.12-1-8_amd64.deb Size: 171992 MD5sum: 14a603f131c5fae10f870f0a3a330bd8 SHA256: 40103be8194556b8ade66c7294806fd3075145d9957f6a91e70f3ab728917f79 [sid] Package: ncbi-epcr Source: epcr Version: 2.3.12-1-9 Installed-Size: 496 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Suggests: bioperl Description: Tool to test a DNA sequence for the presence of sequence tagged sites Homepage: https://www.ncbi.nlm.nih.gov/tools/epcr/ Description-md5: 6eb4b20b4e9fc4026571516f9268e389 Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, scope::utility, use::checking, use::searching, works-with-format::plaintext, works-with::TODO Section: science Priority: optional Filename: pool/main/e/epcr/ncbi-epcr_2.3.12-1-9_amd64.deb Size: 168364 MD5sum: 9e8e1fd0aa6b24e18fd811cbb7dc7812 SHA256: 51d56e4d9c4bd06136448d96d7e9be97a411ba641e685e65f5cd7ed1b4dbe7d6 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt ncbi-epcr=2.3.12-1-9 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 1.1.2~202004292038~1.1.1-19-g418151e2 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt ncbi-epcr=2.3.12-1-9 0m0.0s INFO: Running on: Linux piu-slave-conova-01 4.19.0-13-amd64 #1 SMP Debian 4.19.160-2 (2020-11-28) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmplrvf7tc5 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmplrvf7tc5 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/proc'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/proc'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/ptmx'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/ptmx'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/console'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/console'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/shm'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/shm'] 0m1.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m1.5s DEBUG: Created policy-rc.d and chmodded it. 0m1.5s DEBUG: Created resolv.conf. 0m1.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmplrvf7tc5/tmp/scripts/ 0m1.5s INFO: Running scripts post_chroot_unpack 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'update'] 0m4.9s DUMP: Get:1 http://deb.debian.org/debian bullseye InRelease [123 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 Packages [7911 kB] Get:3 http://deb.debian.org/debian bullseye/main Translation-en [6048 kB] Fetched 14.1 MB in 3s (4746 kB/s) Reading package lists... 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'update'] 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-yf', 'dist-upgrade'] 0m8.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt bsdutils libapt-pkg6.0 libaudit1 libblkid1 libc-bin libc6 libcap-ng0 libmount1 libseccomp2 libsemanage1 libsmartcols1 libsystemd0 libtinfo6 libudev1 libuuid1 mount ncurses-base ncurses-bin util-linux 20 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9993 kB of archives. After this operation, 178 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 bsdutils amd64 1:2.36.1-2 [148 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 ncurses-bin amd64 6.2+20201114-1 [428 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 util-linux amd64 2.36.1-2 [1139 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libc6 amd64 2.31-5 [2806 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 libsystemd0 amd64 247.1-3 [374 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 libudev1 amd64 247.1-3 [165 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libapt-pkg6.0 amd64 2.1.12 [995 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libseccomp2 amd64 2.5.0-3+b1 [48.5 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 apt amd64 2.1.12 [1468 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libc-bin amd64 2.31-5 [811 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 ncurses-base all 6.2+20201114-1 [271 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 mount amd64 2.36.1-2 [184 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libcap-ng0 amd64 0.7.9-2.2+b1 [14.8 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 libaudit1 amd64 1:2.8.5-3.1+b1 [58.8 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 libblkid1 amd64 2.36.1-2 [192 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 libmount1 amd64 2.36.1-2 [210 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 libsemanage1 amd64 3.1-1+b2 [99.3 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libsmartcols1 amd64 2.36.1-2 [156 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 libtinfo6 amd64 6.2+20201114-1 [341 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libuuid1 amd64 2.36.1-2 [82.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9993 kB in 0s (28.9 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 ... 6675 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.36.1-2_amd64.deb ... Unpacking bsdutils (1:2.36.1-2) over (1:2.36.1-1) ... Setting up bsdutils (1:2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.2+20201114-1_amd64.deb ... Unpacking ncurses-bin (6.2+20201114-1) over (6.2+20200918-1) ... Setting up ncurses-bin (6.2+20201114-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../util-linux_2.36.1-2_amd64.deb ... Unpacking util-linux (2.36.1-2) over (2.36.1-1) ... Setting up util-linux (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../libc6_2.31-5_amd64.deb ... Unpacking libc6:amd64 (2.31-5) over (2.31-4) ... Setting up libc6:amd64 (2.31-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../libsystemd0_247.1-3_amd64.deb ... Unpacking libsystemd0:amd64 (247.1-3) over (246.6-4) ... Setting up libsystemd0:amd64 (247.1-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../libudev1_247.1-3_amd64.deb ... Unpacking libudev1:amd64 (247.1-3) over (246.6-4) ... Setting up libudev1:amd64 (247.1-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.1.12_amd64.deb ... Unpacking libapt-pkg6.0:amd64 (2.1.12) over (2.1.11) ... Setting up libapt-pkg6.0:amd64 (2.1.12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6675 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.0-3+b1_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.0-3+b1) over (2.5.0-3) ... Setting up libseccomp2:amd64 (2.5.0-3+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6676 files and directories currently installed.) Preparing to unpack .../archives/apt_2.1.12_amd64.deb ... Unpacking apt (2.1.12) over (2.1.11) ... Setting up apt (2.1.12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6682 files and directories currently installed.) Preparing to unpack .../libc-bin_2.31-5_amd64.deb ... Unpacking libc-bin (2.31-5) over (2.31-4) ... Setting up libc-bin (2.31-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6682 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.2+20201114-1_all.deb ... Unpacking ncurses-base (6.2+20201114-1) over (6.2+20200918-1) ... Setting up ncurses-base (6.2+20201114-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6682 files and directories currently installed.) Preparing to unpack .../mount_2.36.1-2_amd64.deb ... Unpacking mount (2.36.1-2) over (2.36.1-1) ... Preparing to unpack .../libcap-ng0_0.7.9-2.2+b1_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2.2+b1) over (0.7.9-2.2) ... Setting up libcap-ng0:amd64 (0.7.9-2.2+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6683 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.5-3.1+b1_amd64.deb ... Unpacking libaudit1:amd64 (1:2.8.5-3.1+b1) over (1:2.8.5-3.1) ... Setting up libaudit1:amd64 (1:2.8.5-3.1+b1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6684 files and directories currently installed.) Preparing to unpack .../libblkid1_2.36.1-2_amd64.deb ... Unpacking libblkid1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libblkid1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6684 files and directories currently installed.) Preparing to unpack .../libmount1_2.36.1-2_amd64.deb ... Unpacking libmount1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libmount1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6684 files and directories currently installed.) Preparing to unpack .../libsemanage1_3.1-1+b2_amd64.deb ... Unpacking libsemanage1:amd64 (3.1-1+b2) over (3.1-1+b1) ... Setting up libsemanage1:amd64 (3.1-1+b2) ... (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 ... 6684 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.36.1-2_amd64.deb ... Unpacking libsmartcols1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libsmartcols1:amd64 (2.36.1-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6684 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.2+20201114-1_amd64.deb ... Unpacking libtinfo6:amd64 (6.2+20201114-1) over (6.2+20200918-1) ... Setting up libtinfo6:amd64 (6.2+20201114-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6684 files and directories currently installed.) Preparing to unpack .../libuuid1_2.36.1-2_amd64.deb ... Unpacking libuuid1:amd64 (2.36.1-2) over (2.36.1-1) ... Setting up libuuid1:amd64 (2.36.1-2) ... Setting up mount (2.36.1-2) ... Processing triggers for libc-bin (2.31-5) ... 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-yf', 'dist-upgrade'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.2s DUMP: 28ac9efc1c6ee5e5735556d8d361f75a - 0m9.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.2s INFO: Running scripts post_setup 0m9.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_dummy_users'] 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_dummy_users'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_forbid_home'] 0m10.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_forbid_home'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_minimize'] 0m10.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_minimize'] 0m10.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_squeeze-backports'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_zz_backports'] 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_setup_zz_backports'] 0m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.2s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.12 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.48 install ok installed bash bash 5.1~rc3-1 install ok installed bsdutils bsdutils 1:2.36.1-2 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-2 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.20.5 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0+git20201010-2 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.0-19 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-19 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.6-1 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.59 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.12 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3.1 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3.1+b1 install ok installed libblkid1:amd64 libblkid1 2.36.1-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-5 install ok installed libc6:amd64 libc6 2.31-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.17-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.255 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-5 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.0-19 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.6.15-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-4 install ok installed libhogweed6:amd64 libhogweed6 3.6-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-4 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmount1:amd64 libmount1 2.36.1-2 install ok installed libnettle8:amd64 libnettle8 3.6-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnss-nis:amd64 libnss-nis 3.1-4 install ok installed libnss-nisplus:amd64 libnss-nisplus 1.3-4 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.21-2 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.34-7 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.0-3+b1 install ok installed libselinux1:amd64 libselinux1 3.1-2+b1 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-2 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1h-1 install ok installed libstdc++6:amd64 libstdc++6 10.2.0-19 install ok installed libsystemd0:amd64 libsystemd0 247.1-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-1 install ok installed libtirpc-common libtirpc-common 1.2.6-3 install ok installed libtirpc3:amd64 libtirpc3 1.2.6-3 install ok installed libudev1:amd64 libudev1 247.1-3 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-2 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-4 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-2 install ok installed ncurses-base ncurses-base 6.2+20201114-1 install ok installed ncurses-bin ncurses-bin 6.2+20201114-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.0-5 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-5 install ok installed tar tar 1.32+dfsg-1 install ok installed tzdata tzdata 2020d-1 install ok installed util-linux util-linux 2.36.1-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m10.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m10.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m10.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m10.7s INFO: Running scripts is_testable 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/is_testable_uninstallable'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/is_testable_uninstallable'] 0m10.7s INFO: Running scripts pre_test 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_test_exceptions'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_test_root_password'] 0m10.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_test_root_password'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'show', '--no-all-versions', 'ncbi-epcr'] 0m10.9s DUMP: Package: ncbi-epcr Source: epcr Version: 2.3.12-1-8 Installed-Size: 500 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2) Suggests: bioperl Description-en: Tool to test a DNA sequence for the presence of sequence tagged sites Electronic PCR (e-PCR) is computational procedure that is used to identify sequence tagged sites(STSs), within DNA sequences. e-PCR looks for potential STSs in DNA sequences by searching for subsequences that closely match the PCR primers and have the correct order, orientation, and spacing that could represent the PCR primers used to generate known STSs. . The new version of e-PCR implements a fuzzy matching strategy. To reduce likelihood that a true STS will be missed due to mismatches, multiple discontiguous words may be used instead of a single exact word. Each of this word has groups of significant positions separated by 'wildcard' positions that are not required to match. In addition, it is also possible to allow gaps in the primer alignments. . The main motivation for implementing reverse searching (called Reverse e-PCR) was to make it feasible to search the human genome sequence and other large genomes. The new version of e-PCR provides a search mode using a query sequence against a sequence database. . This program is retired upstream and it is suggested to use Primer-Blast https://www.ncbi.nlm.nih.gov/tools/primer-blast/ instead. Description-md5: 6eb4b20b4e9fc4026571516f9268e389 Homepage: https://www.ncbi.nlm.nih.gov/tools/epcr/ Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, scope::utility, use::checking, use::searching, works-with-format::plaintext, works-with::TODO Section: science Priority: optional Filename: pool/main/e/epcr/ncbi-epcr_2.3.12-1-8_amd64.deb Size: 171992 MD5sum: 14a603f131c5fae10f870f0a3a330bd8 SHA256: 40103be8194556b8ade66c7294806fd3075145d9957f6a91e70f3ab728917f79 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'show', '--no-all-versions', 'ncbi-epcr'] 0m10.9s INFO: apt-cache knows about the following packages: ncbi-epcr 0m10.9s INFO: Running scripts pre_install 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m10.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m10.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m11.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release o=Debian,a=testing,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m11.1s DUMP: ncbi-epcr: Installed: (none) Candidate: 2.3.12-1-8 Version table: 2.3.12-1-8 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr'] 0m11.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Suggested packages: bioperl The following NEW packages will be installed: ncbi-epcr 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 172 kB of archives. After this operation, 512 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 ncbi-epcr amd64 2.3.12-1-8 [172 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 172 kB in 0s (3066 kB/s) Selecting previously unselected package ncbi-epcr. (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 ... 6686 files and directories currently installed.) Preparing to unpack .../ncbi-epcr_2.3.12-1-8_amd64.deb ... Unpacking ncbi-epcr (2.3.12-1-8) ... Setting up ncbi-epcr (2.3.12-1-8) ... 0m11.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr'] 0m11.7s INFO: Running scripts post_install 0m11.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m11.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m11.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m11.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m11.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmplrvf7tc5 to sid 0m11.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m11.9s INFO: Running scripts pre_distupgrade 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_exceptions'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_exceptions'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m12.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'update'] 0m15.0s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [153 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [8539 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6428 kB] Fetched 15.1 MB in 3s (5983 kB/s) Reading package lists... 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'update'] 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-yf', 'dist-upgrade'] 0m16.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: gcc-10-base libgcc-s1 libgnutls30 libpcre2-8-0 libselinux1 libstdc++6 ncbi-epcr 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2582 kB of archives. After this operation, 269 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 gcc-10-base amd64 10.2.0-23 [200 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 10.2.0-23 [492 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 10.2.0-23 [41.4 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libgnutls30 amd64 3.7.0-3 [1347 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.35-2 [244 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.1-2+b2 [88.3 kB] Get:7 http://deb.debian.org/debian sid/main amd64 ncbi-epcr amd64 2.3.12-1-9 [168 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2582 kB in 0s (21.5 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 ... 6706 files and directories currently installed.) Preparing to unpack .../gcc-10-base_10.2.0-23_amd64.deb ... Unpacking gcc-10-base:amd64 (10.2.0-23) over (10.2.0-19) ... Setting up gcc-10-base:amd64 (10.2.0-23) ... (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 ... 6706 files and directories currently installed.) Preparing to unpack .../libstdc++6_10.2.0-23_amd64.deb ... Unpacking libstdc++6:amd64 (10.2.0-23) over (10.2.0-19) ... Setting up libstdc++6:amd64 (10.2.0-23) ... (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 ... 6706 files and directories currently installed.) Preparing to unpack .../libgcc-s1_10.2.0-23_amd64.deb ... Unpacking libgcc-s1:amd64 (10.2.0-23) over (10.2.0-19) ... Setting up libgcc-s1:amd64 (10.2.0-23) ... (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 ... 6706 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.0-3_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.0-3) over (3.6.15-4) ... Setting up libgnutls30:amd64 (3.7.0-3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6706 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.35-2_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.35-2) over (10.34-7) ... Setting up libpcre2-8-0:amd64 (10.35-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6706 files and directories currently installed.) Preparing to unpack .../libselinux1_3.1-2+b2_amd64.deb ... Unpacking libselinux1:amd64 (3.1-2+b2) over (3.1-2+b1) ... Setting up libselinux1:amd64 (3.1-2+b2) ... (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 ... 6706 files and directories currently installed.) Preparing to unpack .../ncbi-epcr_2.3.12-1-9_amd64.deb ... Unpacking ncbi-epcr (2.3.12-1-9) over (2.3.12-1-8) ... Setting up ncbi-epcr (2.3.12-1-9) ... Processing triggers for libc-bin (2.31-5) ... 0m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-yf', 'dist-upgrade'] 0m16.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m16.4s DUMP: e7009706dbccfcf9636f40d6d8d67729 - 0m16.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m16.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'show', '--no-all-versions', 'ncbi-epcr'] 0m16.6s DUMP: Package: ncbi-epcr Source: epcr Version: 2.3.12-1-9 Installed-Size: 496 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Suggests: bioperl Description-en: Tool to test a DNA sequence for the presence of sequence tagged sites Electronic PCR (e-PCR) is computational procedure that is used to identify sequence tagged sites(STSs), within DNA sequences. e-PCR looks for potential STSs in DNA sequences by searching for subsequences that closely match the PCR primers and have the correct order, orientation, and spacing that could represent the PCR primers used to generate known STSs. . The new version of e-PCR implements a fuzzy matching strategy. To reduce likelihood that a true STS will be missed due to mismatches, multiple discontiguous words may be used instead of a single exact word. Each of this word has groups of significant positions separated by 'wildcard' positions that are not required to match. In addition, it is also possible to allow gaps in the primer alignments. . The main motivation for implementing reverse searching (called Reverse e-PCR) was to make it feasible to search the human genome sequence and other large genomes. The new version of e-PCR provides a search mode using a query sequence against a sequence database. . This program is retired upstream and it is suggested to use Primer-Blast https://www.ncbi.nlm.nih.gov/tools/primer-blast/ instead. Description-md5: 6eb4b20b4e9fc4026571516f9268e389 Homepage: https://www.ncbi.nlm.nih.gov/tools/epcr/ Tag: field::biology, field::biology:bioinformatics, implemented-in::c++, interface::commandline, role::program, scope::utility, use::checking, use::searching, works-with-format::plaintext, works-with::TODO Section: science Priority: optional Filename: pool/main/e/epcr/ncbi-epcr_2.3.12-1-9_amd64.deb Size: 168364 MD5sum: 9e8e1fd0aa6b24e18fd811cbb7dc7812 SHA256: 51d56e4d9c4bd06136448d96d7e9be97a411ba641e685e65f5cd7ed1b4dbe7d6 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'show', '--no-all-versions', 'ncbi-epcr'] 0m16.6s INFO: apt-cache knows about the following packages: ncbi-epcr 0m16.6s INFO: Running scripts pre_install 0m16.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m16.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m16.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m16.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m16.7s 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: 0m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m16.7s DUMP: ncbi-epcr: Installed: 2.3.12-1-9 Candidate: 2.3.12-1-9 Version table: *** 2.3.12-1-9 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m16.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m16.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr'] 0m17.0s DUMP: Reading package lists... Building dependency tree... Reading state information... ncbi-epcr is already the newest version (2.3.12-1-9). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr'] 0m17.0s INFO: Running scripts post_install 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m17.0s INFO: Running scripts post_distupgrade 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_exceptions'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_exceptions'] 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m17.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_zz_backports'] 0m17.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_distupgrade_zz_backports'] 0m17.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m17.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m17.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m17.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m17.6s INFO: Running scripts pre_install 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_database-server'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_exceptions'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_extras'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m17.6s 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: 0m17.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy'] 0m17.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m17.7s DUMP: ncbi-epcr: Installed: 2.3.12-1-9 Candidate: 2.3.12-1-9 Version table: *** 2.3.12-1-9 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m17.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-cache', 'policy', 'ncbi-epcr'] 0m17.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr=2.3.12-1-9'] 0m17.9s DUMP: Reading package lists... Building dependency tree... Reading state information... ncbi-epcr is already the newest version (2.3.12-1-9). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', '-y', 'install', 'ncbi-epcr=2.3.12-1-9'] 0m17.9s INFO: Running scripts post_install 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_install_exceptions'] 0m17.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m18.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m18.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', '-ac', '--ignore-obsolete'] 0m19.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', '-ac', '--ignore-obsolete'] 0m19.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m19.4s DUMP: 0.15.2 0m19.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m19.4s INFO: Running adequate version 0.15.2 now. 0m19.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'ncbi-epcr'] 0m19.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'ncbi-epcr'] 0m19.5s INFO: Running scripts pre_remove 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m20.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_exceptions'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/pre_remove_exceptions'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m20.2s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.12 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.48 install ok installed bash bash 5.1~rc3-1 install ok installed bsdutils bsdutils 1:2.36.1-2 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-2 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.20.5 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0+git20201010-2 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.0-23 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-19 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.6-1 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.59 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.12 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3.1 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3.1+b1 install ok installed libblkid1:amd64 libblkid1 2.36.1-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-5 install ok installed libc6:amd64 libc6 2.31-5 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.17-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.255 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-5 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.0-23 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-2 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.7.0-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-4 install ok installed libhogweed6:amd64 libhogweed6 3.6-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-4 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmount1:amd64 libmount1 2.36.1-2 install ok installed libnettle8:amd64 libnettle8 3.6-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libnss-nis:amd64 libnss-nis 3.1-4 install ok installed libnss-nisplus:amd64 libnss-nisplus 1.3-4 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.21-2 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.35-2 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.0-3+b1 install ok installed libselinux1:amd64 libselinux1 3.1-2+b2 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-2 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1h-1 install ok installed libstdc++6:amd64 libstdc++6 10.2.0-23 install ok installed libsystemd0:amd64 libsystemd0 247.1-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-1 install ok installed libtirpc-common libtirpc-common 1.2.6-3 install ok installed libtirpc3:amd64 libtirpc3 1.2.6-3 install ok installed libudev1:amd64 libudev1 247.1-3 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-2 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-4 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-2 install ok installed ncbi-epcr ncbi-epcr 2.3.12-1-9 install ok installed ncurses-base ncurses-base 6.2+20201114-1 install ok installed ncurses-bin ncurses-bin 6.2+20201114-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.0-5 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-5 install ok installed tar tar 1.32+dfsg-1 install ok installed tzdata tzdata 2020d-1 install ok installed util-linux util-linux 2.36.1-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m20.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m20.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'remove', 'ncbi-epcr'] 0m20.6s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ncbi-epcr 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 508 kB 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 ... 6706 files and directories currently installed.) Removing ncbi-epcr (2.3.12-1-9) ... 0m20.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'remove', 'ncbi-epcr'] 0m20.6s INFO: Running scripts post_remove 0m20.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_remove_exceptions'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_remove_exceptions'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--purge', 'ncbi-epcr'] 0m20.7s DUMP: dpkg: warning: ignoring request to remove ncbi-epcr which isn't installed 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--purge', 'ncbi-epcr'] 0m20.7s INFO: Running scripts post_purge 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_purge_exceptions'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_purge_exceptions'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--purge', '--pending'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--purge', '--pending'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--remove', '--pending'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg', '--remove', '--pending'] 0m20.7s INFO: Running scripts post_test 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_test_exceptions'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'tmp/scripts/post_test_exceptions'] 0m20.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m21.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-divert', '--list'] 0m21.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'dpkg-divert', '--list'] 0m21.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'clean'] 0m21.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5', 'apt-get', 'clean'] 0m21.1s DEBUG: Recording chroot state 0m22.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/shm'] 0m22.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/shm'] 0m22.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/console'] 0m22.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/console'] 0m22.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/ptmx'] 0m22.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/ptmx'] 0m22.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts'] 0m22.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/dev/pts'] 0m22.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/proc'] 0m22.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5/proc'] 0m22.3s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m22.4s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmplrvf7tc5'] 0m22.4s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmplrvf7tc5 0m22.4s INFO: PASS: Upgrading between Debian distributions. 0m22.4s INFO: PASS: All tests. 0m22.4s INFO: piuparts run ends. ret=0 End: 2020-12-08 06:58:59 GMT