Start: 2014-08-06 15:41:39 UTC Package: autodock Priority: optional Section: science Installed-Size: 460 Maintainer: Debian Med Packaging Team Architecture: amd64 Source: autodocksuite Version: 4.2.3-1 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1) Suggests: autogrid, autodocktools Filename: pool/main/a/autodocksuite/autodock_4.2.3-1_amd64.deb Size: 183006 MD5sum: b97f73320a49a179e3afeb03167f30c6 SHA1: 624f76baeee752ec3e17a8f7f77fa5567d15213b SHA256: 4cf2192dcf976a19fe1c2c08aba3f503f6d2af69504d4ab72e9c9e2f04c5382e Description: analysis of ligand binding to protein structure AutoDock is a prime representative of the programs addressing the simulation of the docking of fairly small chemical ligands to rather big protein receptors. Earlier versions had all flexibility in the ligands while the protein was kept rather ridgid. This latest version 4 also allows for a flexibility of selected sidechains of surface residues, i.e., takes the rotamers into account. . The AutoDock program performs the docking of the ligand to a set of grids describing the target protein. AutoGrid pre-calculates these grids. Homepage: http://autodock.scripps.edu/ Tag: field::biology, field::biology:structural, implemented-in::c, interface::commandline, role::program, scope::utility, use::analysing, works-with::3dmodel Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python2.7/dist-packages timeout -s INT -k 5m 35m /srv/piuparts.debian.org/sbin/piuparts --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge -i /etc/shells --scriptsdir /etc/piuparts/scripts-squeeze --warn-on-debsums-errors --mirror 'http://mirror.bm.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz -d squeeze --no-upgrade-test --apt autodock=4.2.3-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 0.59 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge -i /etc/shells --scriptsdir /etc/piuparts/scripts-squeeze --warn-on-debsums-errors --mirror 'http://mirror.bm.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz -d squeeze --no-upgrade-test --apt autodock=4.2.3-1 0m0.0s INFO: Running on: Linux piu-slave-bm-a 3.2.0-4-amd64 #1 SMP Debian 3.2.60-1+deb7u3 x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpBsUYC5 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpBsUYC5 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m1.8s DUMP: tar: ./proc: time stamp 2014-09-01 04:24:41 is 2205781.113865007 s in the future 0m1.8s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/squeeze_amd64.tar.gz'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'mount', '-t', 'proc', 'proc', '/proc'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'mount', '-t', 'proc', 'proc', '/proc'] 0m1.8s DEBUG: sources.list: deb http://mirror.bm.debian.org/debian/ squeeze main 0m1.8s DEBUG: Created policy-rc.d and chmodded it. 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'update'] 0m4.6s DUMP: Get:1 http://mirror.bm.debian.org squeeze Release.gpg [1655 B] Ign http://mirror.bm.debian.org/debian/ squeeze/main Translation-en Get:2 http://mirror.bm.debian.org squeeze Release [96.0 kB] Get:3 http://mirror.bm.debian.org squeeze/main amd64 Packages [8370 kB] Fetched 8468 kB in 2s (4046 kB/s) Reading package lists... 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'update'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-yf', 'dist-upgrade'] 0m6.1s DUMP: Reading package lists... Building dependency tree... The following packages will be upgraded: base-files dpkg tzdata 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 3117 kB of archives. After this operation, 53.2 kB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ squeeze/main base-files amd64 6.0squeeze10 [76.1 kB] Get:2 http://mirror.bm.debian.org/debian/ squeeze/main dpkg amd64 1.15.11 [2402 kB] Get:3 http://mirror.bm.debian.org/debian/ squeeze/main tzdata all 2014e-0squeeze1 [639 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 3117 kB in 0s (5700 kB/s) (Reading database ... 6135 files and directories currently installed.) Preparing to replace base-files 6.0squeeze9 (using .../base-files_6.0squeeze10_amd64.deb) ... Unpacking replacement base-files ... Setting up base-files (6.0squeeze10) ... Installing new version of config file /etc/debian_version ... (Reading database ... 6135 files and directories currently installed.) Preparing to replace dpkg 1.15.8.13 (using .../dpkg_1.15.11_amd64.deb) ... Unpacking replacement dpkg ... Setting up dpkg (1.15.11) ... (Reading database ... 6135 files and directories currently installed.) Preparing to replace tzdata 2013i-0squeeze1 (using .../tzdata_2014e-0squeeze1_all.deb) ... Unpacking replacement tzdata ... Setting up tzdata (2014e-0squeeze1) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Aug 6 15:41:45 UTC 2014. Universal Time is now: Wed Aug 6 15:41:45 UTC 2014. Run 'dpkg-reconfigure tzdata' if you wish to change it. 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-yf', 'dist-upgrade'] 0m6.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpBsUYC5/tmp/scripts/ 0m6.1s DEBUG: Copying scriptsdir /etc/piuparts/scripts-squeeze to /srv/piuparts.debian.org/tmp/tmpBsUYC5/tmp/scripts/ 0m6.1s INFO: Running scripts post_setup 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_experimental'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_experimental'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_squeeze-fake-essential'] 0m7.3s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... Reading state information... Suggested packages: perl-modules The following NEW packages will be installed: adduser ucf 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 320 kB of archives. After this operation, 1532 kB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ squeeze/main adduser all 3.112+nmu2 [250 kB] Get:2 http://mirror.bm.debian.org/debian/ squeeze/main ucf all 3.0025+nmu1 [69.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 320 kB in 0s (1403 kB/s) Selecting previously deselected package adduser. (Reading database ... 6138 files and directories currently installed.) Unpacking adduser (from .../adduser_3.112+nmu2_all.deb) ... Selecting previously deselected package ucf. Unpacking ucf (from .../ucf_3.0025+nmu1_all.deb) ... Moving old data out of the way Setting up adduser (3.112+nmu2) ... Setting up ucf (3.0025+nmu1) ... 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_setup_squeeze-fake-essential'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--get-selections', '*'] 0m7.8s DUMP: adduser install apt install base-files install base-passwd install bash install bsdutils install coreutils install dash install debconf install debconf-i18n install debian-archive-keyring install debianutils install diffutils install dpkg install e2fslibs install e2fsprogs install findutils install gcc-4.4-base install gnupg install gpgv install grep install gzip install hostname install initscripts install insserv install libacl1 install libattr1 install libblkid1 install libbz2-1.0 install libc-bin install libc6 install libcomerr2 install libdb4.8 install libgcc1 install liblocale-gettext-perl install liblzma2 install libncurses5 install libpam-modules install libpam-runtime install libpam0g install libreadline6 install libselinux1 install libsepol1 install libslang2 install libss2 install libstdc++6 install libtext-charwidth-perl install libtext-iconv-perl install libtext-wrapi18n-perl install libusb-0.1-4 install libuuid1 install login install lsb-base install mawk install mount install ncurses-base install ncurses-bin install passwd install perl-base install readline-common install sed install sensible-utils install sysv-rc install sysvinit install sysvinit-utils install tar install tzdata install ucf install util-linux install xz-utils install zlib1g install 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--get-selections', '*'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-divert', '--list'] 0m7.8s DUMP: diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /bin/sync to /bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-divert', '--list'] 0m7.8s INFO: apt-cache does not know about any of the requested packages 0m7.8s INFO: Running scripts pre_test 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_test_root_password'] 0m7.9s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_test_root_password'] 0m7.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m8.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m8.9s DEBUG: No broken symlinks as far as we can find. 0m8.9s INFO: Running scripts pre_install 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_database-server'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_database-server'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_exceptions'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_exceptions'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_extras'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_extras'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'show', 'autodock=4.2.3-1'] 0m9.0s DUMP: Package: autodock Priority: optional Section: science Installed-Size: 460 Maintainer: Debian Med Packaging Team Architecture: amd64 Source: autodocksuite Version: 4.2.3-1 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1) Suggests: autogrid, autodocktools Filename: pool/main/a/autodocksuite/autodock_4.2.3-1_amd64.deb Size: 183006 MD5sum: b97f73320a49a179e3afeb03167f30c6 SHA1: 624f76baeee752ec3e17a8f7f77fa5567d15213b SHA256: 4cf2192dcf976a19fe1c2c08aba3f503f6d2af69504d4ab72e9c9e2f04c5382e Description: analysis of ligand binding to protein structure AutoDock is a prime representative of the programs addressing the simulation of the docking of fairly small chemical ligands to rather big protein receptors. Earlier versions had all flexibility in the ligands while the protein was kept rather ridgid. This latest version 4 also allows for a flexibility of selected sidechains of surface residues, i.e., takes the rotamers into account. . The AutoDock program performs the docking of the ligand to a set of grids describing the target protein. AutoGrid pre-calculates these grids. Homepage: http://autodock.scripps.edu/ Tag: field::biology, field::biology:structural, implemented-in::c, interface::commandline, role::program, scope::utility, use::analysing, works-with::3dmodel 0m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'show', 'autodock=4.2.3-1'] 0m9.0s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: all Maintainer: piuparts developers team Description: Dummy package to satisfy dependencies - created by piuparts This package was created automatically by piuparts and can safely be removed Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1) 0m9.0s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpixVkC0/piuparts-depends-dummy'] 0m9.0s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmpixVkC0/piuparts-depends-dummy.deb'. 0m9.0s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpixVkC0/piuparts-depends-dummy'] 0m9.0s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmpixVkC0/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmpBsUYC5/tmp 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb'] 0m9.1s DUMP: Selecting previously deselected package piuparts-depends-dummy. (Reading database ... 6261 files and directories currently installed.) Unpacking piuparts-depends-dummy (from tmp/piuparts-depends-dummy.deb) ... Setting up piuparts-depends-dummy (0.invalid.0) ... 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-yf', 'install'] 0m9.6s DUMP: Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-yf', 'install'] 0m9.6s INFO: Installation of ['tmp/piuparts-depends-dummy.deb'] ok 0m9.6s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmpBsUYC5/tmp/piuparts-depends-dummy.deb 0m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m9.6s DUMP: piuparts-depends-dummy install ok installed 0m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m9.7s DUMP: (Reading database ... 6261 files and directories currently installed.) Removing piuparts-depends-dummy ... 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m9.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m9.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m10.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m10.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m11.2s DEBUG: No broken symlinks as far as we can find. 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'policy'] 0m11.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror.bm.debian.org/debian/ squeeze/main amd64 Packages release v=6.0.10,o=Debian,a=oldstable,n=squeeze,l=Debian,c=main origin mirror.bm.debian.org Pinned packages: 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'policy'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'policy', 'autodock'] 0m11.3s DUMP: autodock: Installed: (none) Candidate: 4.2.3-1 Version table: 4.2.3-1 0 500 http://mirror.bm.debian.org/debian/ squeeze/main amd64 Packages 0m11.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-cache', 'policy', 'autodock'] 0m11.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-y', 'install', 'autodock=4.2.3-1'] 0m11.9s DUMP: Reading package lists... Building dependency tree... Reading state information... 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 183 kB of archives. After this operation, 471 kB of additional disk space will be used. Get:1 http://mirror.bm.debian.org/debian/ squeeze/main autodock amd64 4.2.3-1 [183 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 183 kB in 0s (2322 kB/s) Selecting previously deselected package autodock. (Reading database ... 6261 files and directories currently installed.) Unpacking autodock (from .../autodock_4.2.3-1_amd64.deb) ... Setting up autodock (4.2.3-1) ... ---------------------------------------------------------------------- ______ / \ / \ / \ \ /\ / \ / \ / \/ /\ \/ / \ /____\ 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. ---------------------------------------------------------------------- 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', '-y', 'install', 'autodock=4.2.3-1'] 0m11.9s INFO: Running scripts post_install 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_install_exceptions'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_install_exceptions'] 0m11.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m12.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m12.9s DEBUG: No broken symlinks as far as we can find. 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--get-selections', '*'] 0m13.0s DUMP: adduser install apt install autodock install base-files install base-passwd install bash install bsdutils install coreutils install dash install debconf install debconf-i18n install debian-archive-keyring install debianutils install diffutils install dpkg install e2fslibs install e2fsprogs install findutils install gcc-4.4-base install gnupg install gpgv install grep install gzip install hostname install initscripts install insserv install libacl1 install libattr1 install libblkid1 install libbz2-1.0 install libc-bin install libc6 install libcomerr2 install libdb4.8 install libgcc1 install liblocale-gettext-perl install liblzma2 install libncurses5 install libpam-modules install libpam-runtime install libpam0g install libreadline6 install libselinux1 install libsepol1 install libslang2 install libss2 install libstdc++6 install libtext-charwidth-perl install libtext-iconv-perl install libtext-wrapi18n-perl install libusb-0.1-4 install libuuid1 install login install lsb-base install mawk install mount install ncurses-base install ncurses-bin install passwd install perl-base install readline-common install sed install sensible-utils install sysv-rc install sysvinit install sysvinit-utils install tar install tzdata install ucf install util-linux install xz-utils install zlib1g install 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--get-selections', '*'] 0m13.5s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', '-ac'] 0m14.1s DUMP: debsums: no md5sums for mawk 0m14.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', '-ac'] 0m14.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m14.1s DUMP: 0.11.6~bpo70+1 0m14.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m14.1s INFO: Running adequate version 0.11.6~bpo70+1 now. 0m14.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'autodock'] 0m14.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'autodock'] 0m14.2s INFO: Running scripts pre_remove 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m14.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m14.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_exceptions'] 0m14.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/pre_remove_exceptions'] 0m14.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'remove', 'autodock'] 0m15.0s 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, 471 kB disk space will be freed. (Reading database ... 6271 files and directories currently installed.) Removing autodock ... 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'remove', 'autodock'] 0m15.0s INFO: Running scripts post_remove 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_remove_exceptions_lenny'] 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_remove_exceptions_lenny'] 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_remove_extras'] 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_remove_extras'] 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', 'autodock'] 0m15.0s DUMP: dpkg: warning: ignoring request to remove autodock which isn't installed. 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', 'autodock'] 0m15.0s INFO: Running scripts post_purge 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_purge_exceptions'] 0m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'tmp/scripts/post_purge_exceptions'] 0m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', '--pending'] 0m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--purge', '--pending'] 0m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--remove', '--pending'] 0m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg', '--remove', '--pending'] 0m15.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m15.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m16.1s DEBUG: No broken symlinks as far as we can find. 0m16.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-divert', '--list'] 0m16.1s DUMP: diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /bin/sync to /bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m16.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'dpkg-divert', '--list'] 0m16.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m16.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'apt-get', 'clean'] 0m17.2s INFO: PASS: Installation and purging test. 0m17.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'umount', '/proc'] 0m17.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpBsUYC5', 'umount', '/proc'] 0m17.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m17.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpBsUYC5'] 0m17.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpBsUYC5 0m17.5s INFO: PASS: All tests. 0m17.5s INFO: piuparts run ends. ret=0 End: 2014-08-06 15:41:57 UTC