Start: 2024-10-08 04:32:28 GMT Package: autodock Source: autodocksuite Version: 4.2.6-6 Installed-Size: 394 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.3.1), libstdc++6 (>= 5.2) Suggests: autogrid, autodocktools Description: analysis of ligand binding to protein structure Homepage: http://autodock.scripps.edu/ Description-md5: cb07d52bd1e475f3264ac94629f75f4f Tag: field::biology, field::biology:structural, implemented-in::c, interface::commandline, role::program, scope::utility, use::analysing, works-with-format::TODO, works-with::3dmodel, works-with::TODO Section: science Priority: optional Filename: pool/main/a/autodocksuite/autodock_4.2.6-6_amd64.deb Size: 159976 MD5sum: 59ffd5ddc888d6b98e1a474cd15e1c4b SHA256: c51839af82130076cd98a66780d8759aabd8b695c0199762047452a3929a0f39 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt autodock=4.2.6-6 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt autodock=4.2.6-6 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp3kicbkcr 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp3kicbkcr 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp3kicbkcr/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'update'] 0m0.8s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Reading package lists... 0m0.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'update'] 0m0.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', '-yf', 'dist-upgrade'] 0m1.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', '-yf', 'dist-upgrade'] 0m1.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.2s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.2s INFO: Running scripts post_setup 0m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_dummy_users'] 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_dummy_users'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_forbid_home'] 0m1.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_forbid_home'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_force-unsafe-io'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_minimize'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_minimize'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_squeeze-backports'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_zz_backports'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_setup_zz_backports'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'clean'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'clean'] 0m1.8s DEBUG: Recording chroot state 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.0s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 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 libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-divert', '--list'] 0m2.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-divert', '--list'] 0m2.1s INFO: Running scripts is_testable 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/is_testable_uninstallable'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/is_testable_uninstallable'] 0m2.1s INFO: apt-cache does not know about any of the requested packages 0m2.1s INFO: Running scripts pre_test 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_test_exceptions'] 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_test_exceptions'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_test_root_password'] 0m2.1s DUMP: New password: Retype new password: passwd: password updated successfully 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_test_root_password'] 0m2.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m2.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m2.6s DEBUG: No broken symlinks as far as we can find. 0m2.6s INFO: Running scripts pre_install 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_database-server'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_database-server'] 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_exceptions'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_exceptions'] 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_extras'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_extras'] 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_foreign_architecture'] 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m2.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m2.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m3.1s DEBUG: No broken symlinks as far as we can find. 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-cache', 'policy'] 0m3.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-cache', 'policy'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-cache', 'policy', 'autodock'] 0m3.5s DUMP: autodock: Installed: (none) Candidate: 4.2.6-6 Version table: 4.2.6-6 500 500 http://deb.debian.org/debian buster/main amd64 Packages 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-cache', 'policy', 'autodock'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', '-y', 'install', 'autodock=4.2.6-6'] 0m4.4s DUMP: Reading package lists... Building dependency tree... Suggested packages: autogrid autodocktools The following NEW packages will be installed: autodock 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 160 kB of archives. After this operation, 403 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 autodock amd64 4.2.6-6 [160 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 160 kB in 1s (315 kB/s) Selecting previously unselected package autodock. (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 ... 6464 files and directories currently installed.) Preparing to unpack .../autodock_4.2.6-6_amd64.deb ... Unpacking autodock (4.2.6-6) ... Setting up autodock (4.2.6-6) ... ---------------------------------------------------------------------- ______ / \ / \ / \ \ /\ / \ / \ / \/ /\ \/ / \ /____\ AutoDock and AutoGrid are free software, distributed under the terms of the GNU General Public License 2 or later. This allows us to share the code and to be open for improvement from the whole scientific community. The development of the AutoDock suite is entirely funded by research grants. For that reason, we ask you to register at the AutoDock Registration page http://autodock.scripps.edu/downloads/autodock-registration in order to keep track of number of unique downloads, which we use to support the grant applications. Installing the Debian popularity-contest package is also encouraged. Thank you, and happy docking! The AutoDock Development Team If you plan to use AutoDock for commercial purposes we encourage donations to the Olson laboratory to help support further development of the AutoDock 4 suite of programs. Donation information provided on the download page. ---------------------------------------------------------------------- 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', '-y', 'install', 'autodock=4.2.6-6'] 0m4.4s INFO: Running scripts post_install 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_install_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_install_exceptions'] 0m4.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m4.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m5.0s DEBUG: No broken symlinks as far as we can find. 0m5.0s INFO: /bin converted to /usr/bin by /usr merge 0m5.0s INFO: /lib converted to /usr/lib by /usr merge 0m5.0s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m5.0s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m5.0s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m5.0s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m5.0s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m5.0s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m5.0s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m5.0s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m5.0s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m5.0s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m5.0s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m5.0s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m5.0s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m5.0s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m5.0s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m5.0s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m5.0s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m5.0s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m5.0s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m5.0s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m5.0s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m5.0s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m5.0s INFO: /sbin converted to /usr/sbin by /usr merge 0m5.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', '-ac', '--ignore-obsolete'] 0m5.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', '-ac', '--ignore-obsolete'] 0m5.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m5.5s DUMP: 0.15.6 0m5.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m5.5s INFO: Running adequate version 0.15.6 now. 0m5.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'autodock'] 0m5.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'autodock'] 0m5.6s INFO: Running scripts pre_remove 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m6.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_exceptions'] 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/pre_remove_exceptions'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.4s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed autodock autodock 4.2.6-6 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 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 libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m6.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'remove', 'autodock'] 0m6.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: autodock 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 403 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 ... 6475 files and directories currently installed.) Removing autodock (4.2.6-6) ... 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'remove', 'autodock'] 0m6.7s INFO: Running scripts post_remove 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_remove_exceptions'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_remove_exceptions'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--purge', 'autodock'] 0m6.7s DUMP: dpkg: warning: ignoring request to remove autodock which isn't installed 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--purge', 'autodock'] 0m6.7s INFO: Running scripts post_purge 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_purge_exceptions'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_purge_exceptions'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--purge', '--pending'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--purge', '--pending'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--remove', '--pending'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg', '--remove', '--pending'] 0m6.8s INFO: Running scripts post_test 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_test_exceptions'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'tmp/scripts/post_test_exceptions'] 0m6.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m7.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m7.3s DEBUG: No broken symlinks as far as we can find. 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-divert', '--list'] 0m7.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'dpkg-divert', '--list'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'clean'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr', 'apt-get', 'clean'] 0m7.3s DEBUG: Recording chroot state 0m7.6s INFO: PASS: Installation and purging test. 0m7.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/shm'] 0m7.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/shm'] 0m7.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/console'] 0m7.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/console'] 0m7.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/ptmx'] 0m7.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/ptmx'] 0m7.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts'] 0m7.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/dev/pts'] 0m7.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/proc'] 0m7.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr/proc'] 0m7.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m7.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp3kicbkcr'] 0m7.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp3kicbkcr 0m7.9s INFO: PASS: All tests. 0m7.9s INFO: piuparts run ends. ret=0 End: 2024-10-08 04:32:36 GMT