RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux komainu 3.2.0-37-generic #58-Ubuntu SMP Thu Jan 24 15:28:10 UTC 2013 x86_64 Buildd toolchain package versions: launchpad-buildd_115~0.IS.08.04 python-lpbuildd_115~0.IS.08.04 bzr_2.5.1-0ubuntu2. Syncing the system clock with the buildd NTP service... 14 Sep 01:26:59 ntpdate[17910]: adjust time server 10.211.37.1 offset 0.000401 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-4974784', '/home/buildd/filecache-default/4c12c17a8142a7f12f4dfafdc67d0a2d6d59fe12'] Unpacking chroot for build PACKAGEBUILD-4974784 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-4974784'] Mounting chroot for build PACKAGEBUILD-4974784 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-4974784', 'deb http://ftpmaster.internal/ubuntu saucy main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu saucy-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu saucy-updates main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu saucy-proposed main restricted universe multiverse'] Overriding sources.list in build-PACKAGEBUILD-4974784 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-4974784', 'i386'] Updating debian chroot for build PACKAGEBUILD-4974784 Ign http://ftpmaster.internal saucy InRelease Ign http://archive-team.internal saucy InRelease Ign http://ftpmaster.internal saucy-security InRelease Ign http://archive-team.internal saucy Release.gpg Ign http://ftpmaster.internal saucy-updates InRelease Get:1 http://archive-team.internal saucy Release [721 B] Ign http://ftpmaster.internal saucy-proposed InRelease Get:2 http://ftpmaster.internal saucy Release.gpg [933 B] Get:3 http://ftpmaster.internal saucy-security Release.gpg [933 B] Get:4 http://ftpmaster.internal saucy-updates Release.gpg [933 B] Get:5 http://ftpmaster.internal saucy-proposed Release.gpg [933 B] Get:6 http://ftpmaster.internal saucy Release [49.6 kB] Get:7 http://ftpmaster.internal saucy-security Release [49.6 kB] Get:8 http://archive-team.internal saucy/main i386 Packages Get:9 http://ftpmaster.internal saucy-updates Release [49.6 kB] Ign http://archive-team.internal saucy/main Translation-en Get:10 http://ftpmaster.internal saucy-proposed Release [49.6 kB] Get:11 http://ftpmaster.internal saucy/main i386 Packages [1262 kB] Get:12 http://ftpmaster.internal saucy/restricted i386 Packages [9978 B] Get:13 http://ftpmaster.internal saucy/universe i386 Packages [5642 kB] Get:14 http://ftpmaster.internal saucy/multiverse i386 Packages [133 kB] Get:15 http://ftpmaster.internal saucy/main Translation-en [712 kB] Get:16 http://ftpmaster.internal saucy/multiverse Translation-en [101 kB] Get:17 http://ftpmaster.internal saucy/restricted Translation-en [2884 B] Get:18 http://ftpmaster.internal saucy/universe Translation-en [3875 kB] Get:19 http://ftpmaster.internal saucy-security/main i386 Packages [14 B] Get:20 http://ftpmaster.internal saucy-security/restricted i386 Packages [14 B] Get:21 http://ftpmaster.internal saucy-security/universe i386 Packages [14 B] Get:22 http://ftpmaster.internal saucy-security/multiverse i386 Packages [14 B] Get:23 http://ftpmaster.internal saucy-security/main Translation-en [14 B] Get:24 http://ftpmaster.internal saucy-security/multiverse Translation-en [14 B] Get:25 http://ftpmaster.internal saucy-security/restricted Translation-en [14 B] Get:26 http://ftpmaster.internal saucy-security/universe Translation-en [14 B] Get:27 http://ftpmaster.internal saucy-updates/main i386 Packages [14 B] Get:28 http://ftpmaster.internal saucy-updates/restricted i386 Packages [14 B] Get:29 http://ftpmaster.internal saucy-updates/universe i386 Packages [14 B] Get:30 http://ftpmaster.internal saucy-updates/multiverse i386 Packages [14 B] Get:31 http://ftpmaster.internal saucy-updates/main Translation-en [14 B] Get:32 http://ftpmaster.internal saucy-updates/multiverse Translation-en [14 B] Get:33 http://ftpmaster.internal saucy-updates/restricted Translation-en [14 B] Get:34 http://ftpmaster.internal saucy-updates/universe Translation-en [14 B] Get:35 http://ftpmaster.internal saucy-proposed/main i386 Packages [19.1 kB] Get:36 http://ftpmaster.internal saucy-proposed/restricted i386 Packages [14 B] Get:37 http://ftpmaster.internal saucy-proposed/universe i386 Packages [63.8 kB] Get:38 http://ftpmaster.internal saucy-proposed/multiverse i386 Packages [1725 B] Get:39 http://ftpmaster.internal saucy-proposed/main Translation-en [10.9 kB] Get:40 http://ftpmaster.internal saucy-proposed/multiverse Translation-en [1348 B] Get:41 http://ftpmaster.internal saucy-proposed/restricted Translation-en [14 B] Get:42 http://ftpmaster.internal saucy-proposed/universe Translation-en [41.3 kB] Fetched 12.1 MB in 6s (1913 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: apt apt-transport-https binutils cpp-4.8 g++-4.8 gcc-4.8 gcc-4.8-base libapt-pkg4.12 libasan0 libatomic1 libcurl3-gnutls libgcc-4.8-dev libgcc1 libgomp1 libgpg-error0 libitm1 libquadmath0 libstdc++-4.8-dev libstdc++6 libudev1 linux-libc-dev lsb-base mountall udev 24 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 33.9 MB of archives. After this operation, 37.9 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libitm1 libgomp1 libasan0 gcc-4.8-base libgcc1 libatomic1 libquadmath0 cpp-4.8 binutils libstdc++-4.8-dev g++-4.8 gcc-4.8 libgcc-4.8-dev libstdc++6 libapt-pkg4.12 apt lsb-base udev libudev1 mountall libcurl3-gnutls libgpg-error0 apt-transport-https linux-libc-dev Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ saucy/main libitm1 i386 4.8.1-10ubuntu1 [36.8 kB] Get:2 http://ftpmaster.internal/ubuntu/ saucy/main libgomp1 i386 4.8.1-10ubuntu1 [29.0 kB] Get:3 http://ftpmaster.internal/ubuntu/ saucy/main libasan0 i386 4.8.1-10ubuntu1 [76.2 kB] Get:4 http://ftpmaster.internal/ubuntu/ saucy/main gcc-4.8-base i386 4.8.1-10ubuntu1 [16.3 kB] Get:5 http://ftpmaster.internal/ubuntu/ saucy/main libgcc1 i386 1:4.8.1-10ubuntu1 [53.8 kB] Get:6 http://ftpmaster.internal/ubuntu/ saucy/main libatomic1 i386 4.8.1-10ubuntu1 [9698 B] Get:7 http://ftpmaster.internal/ubuntu/ saucy/main libquadmath0 i386 4.8.1-10ubuntu1 [218 kB] Get:8 http://ftpmaster.internal/ubuntu/ saucy/main cpp-4.8 i386 4.8.1-10ubuntu1 [5657 kB] Get:9 http://ftpmaster.internal/ubuntu/ saucy/main binutils i386 2.23.52.20130828-1ubuntu1 [3644 kB] Get:10 http://ftpmaster.internal/ubuntu/ saucy/main libstdc++-4.8-dev i386 4.8.1-10ubuntu1 [1746 kB] Get:11 http://ftpmaster.internal/ubuntu/ saucy/main g++-4.8 i386 4.8.1-10ubuntu1 [8485 kB] Get:12 http://ftpmaster.internal/ubuntu/ saucy/main gcc-4.8 i386 4.8.1-10ubuntu1 [6444 kB] Get:13 http://ftpmaster.internal/ubuntu/ saucy/main libgcc-4.8-dev i386 4.8.1-10ubuntu1 [2798 kB] Get:14 http://ftpmaster.internal/ubuntu/ saucy/main libstdc++6 i386 4.8.1-10ubuntu1 [335 kB] Get:15 http://ftpmaster.internal/ubuntu/ saucy/main libapt-pkg4.12 i386 0.9.9.1~ubuntu3 [826 kB] Get:16 http://ftpmaster.internal/ubuntu/ saucy/main apt i386 0.9.9.1~ubuntu3 [1239 kB] Get:17 http://ftpmaster.internal/ubuntu/ saucy/main lsb-base all 4.1+Debian11ubuntu4 [14.2 kB] Get:18 http://ftpmaster.internal/ubuntu/ saucy/main udev i386 204-0ubuntu11 [1042 kB] Get:19 http://ftpmaster.internal/ubuntu/ saucy/main libudev1 i386 204-0ubuntu11 [37.3 kB] Get:20 http://ftpmaster.internal/ubuntu/ saucy/main mountall i386 2.50 [67.3 kB] Get:21 http://ftpmaster.internal/ubuntu/ saucy/main libcurl3-gnutls i386 7.32.0-1ubuntu1 [191 kB] Get:22 http://ftpmaster.internal/ubuntu/ saucy/main libgpg-error0 i386 1.12-0.2 [12.5 kB] Get:23 http://ftpmaster.internal/ubuntu/ saucy/main apt-transport-https i386 0.9.9.1~ubuntu3 [16.6 kB] Get:24 http://ftpmaster.internal/ubuntu/ saucy/main linux-libc-dev i386 3.11.0-7.13 [939 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 33.9 MB in 2s (15.9 MB/s) (Reading database ... 12071 files and directories currently installed.) Preparing to replace libitm1:i386 4.8.1-9ubuntu1 (using .../libitm1_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libitm1:i386 ... Preparing to replace libgomp1:i386 4.8.1-9ubuntu1 (using .../libgomp1_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libgomp1:i386 ... Preparing to replace libasan0:i386 4.8.1-9ubuntu1 (using .../libasan0_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libasan0:i386 ... Preparing to replace gcc-4.8-base:i386 4.8.1-9ubuntu1 (using .../gcc-4.8-base_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement gcc-4.8-base:i386 ... Setting up gcc-4.8-base:i386 (4.8.1-10ubuntu1) ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace libgcc1:i386 1:4.8.1-9ubuntu1 (using .../libgcc1_1%3a4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libgcc1:i386 ... Setting up libgcc1:i386 (1:4.8.1-10ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace libatomic1:i386 4.8.1-9ubuntu1 (using .../libatomic1_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libatomic1:i386 ... Preparing to replace libquadmath0:i386 4.8.1-9ubuntu1 (using .../libquadmath0_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libquadmath0:i386 ... Preparing to replace cpp-4.8 4.8.1-9ubuntu1 (using .../cpp-4.8_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement cpp-4.8 ... Preparing to replace binutils 2.23.52.20130727-1ubuntu1 (using .../binutils_2.23.52.20130828-1ubuntu1_i386.deb) ... Unpacking replacement binutils ... Preparing to replace libstdc++-4.8-dev:i386 4.8.1-9ubuntu1 (using .../libstdc++-4.8-dev_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libstdc++-4.8-dev:i386 ... Preparing to replace g++-4.8 4.8.1-9ubuntu1 (using .../g++-4.8_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement g++-4.8 ... Preparing to replace gcc-4.8 4.8.1-9ubuntu1 (using .../gcc-4.8_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement gcc-4.8 ... Preparing to replace libgcc-4.8-dev:i386 4.8.1-9ubuntu1 (using .../libgcc-4.8-dev_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libgcc-4.8-dev:i386 ... Preparing to replace libstdc++6:i386 4.8.1-9ubuntu1 (using .../libstdc++6_4.8.1-10ubuntu1_i386.deb) ... Unpacking replacement libstdc++6:i386 ... Setting up libstdc++6:i386 (4.8.1-10ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace libapt-pkg4.12:i386 0.9.9.1~ubuntu2 (using .../libapt-pkg4.12_0.9.9.1~ubuntu3_i386.deb) ... Unpacking replacement libapt-pkg4.12:i386 ... Setting up libapt-pkg4.12:i386 (0.9.9.1~ubuntu3) ... Processing triggers for libc-bin ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace apt 0.9.9.1~ubuntu2 (using .../apt_0.9.9.1~ubuntu3_i386.deb) ... Unpacking replacement apt ... Setting up apt (0.9.9.1~ubuntu3) ... Installing new version of config file /etc/kernel/postinst.d/apt-auto-removal ... gpg: key 437D05B5: "Ubuntu Archive Automatic Signing Key " not changed gpg: key FBB75451: "Ubuntu CD Image Automatic Signing Key " not changed gpg: key C0B21F32: "Ubuntu Archive Automatic Signing Key (2012) " not changed gpg: key EFE21092: "Ubuntu CD Image Automatic Signing Key (2012) " not changed gpg: Total number processed: 4 gpg: unchanged: 4 (Reading database ... 12071 files and directories currently installed.) Preparing to replace lsb-base 4.1+Debian11ubuntu3 (using .../lsb-base_4.1+Debian11ubuntu4_all.deb) ... Unpacking replacement lsb-base ... Setting up lsb-base (4.1+Debian11ubuntu4) ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace udev 204-0ubuntu10 (using .../udev_204-0ubuntu11_i386.deb) ... Adding 'diversion of /bin/udevadm to /bin/udevadm.upgrade by fake-udev' Unpacking replacement udev ... Preparing to replace libudev1:i386 204-0ubuntu10 (using .../libudev1_204-0ubuntu11_i386.deb) ... Unpacking replacement libudev1:i386 ... Preparing to replace mountall 2.49 (using .../mountall_2.50_i386.deb) ... Unpacking replacement mountall ... Preparing to replace libcurl3-gnutls:i386 7.31.0-2ubuntu1 (using .../libcurl3-gnutls_7.32.0-1ubuntu1_i386.deb) ... Unpacking replacement libcurl3-gnutls:i386 ... Preparing to replace libgpg-error0:i386 1.12-0.1 (using .../libgpg-error0_1.12-0.2_i386.deb) ... Unpacking replacement libgpg-error0:i386 ... Preparing to replace apt-transport-https 0.9.9.1~ubuntu2 (using .../apt-transport-https_0.9.9.1~ubuntu3_i386.deb) ... Unpacking replacement apt-transport-https ... Preparing to replace linux-libc-dev:i386 3.11.0-4.9 (using .../linux-libc-dev_3.11.0-7.13_i386.deb) ... Unpacking replacement linux-libc-dev:i386 ... Setting up libitm1:i386 (4.8.1-10ubuntu1) ... Setting up libgomp1:i386 (4.8.1-10ubuntu1) ... Setting up libasan0:i386 (4.8.1-10ubuntu1) ... Setting up libatomic1:i386 (4.8.1-10ubuntu1) ... Setting up libquadmath0:i386 (4.8.1-10ubuntu1) ... Setting up cpp-4.8 (4.8.1-10ubuntu1) ... Setting up binutils (2.23.52.20130828-1ubuntu1) ... Setting up libgcc-4.8-dev:i386 (4.8.1-10ubuntu1) ... Setting up libstdc++-4.8-dev:i386 (4.8.1-10ubuntu1) ... Setting up gcc-4.8 (4.8.1-10ubuntu1) ... Setting up g++-4.8 (4.8.1-10ubuntu1) ... Setting up libudev1:i386 (204-0ubuntu11) ... Setting up udev (204-0ubuntu11) ... invoke-rc.d: policy-rc.d denied execution of restart. Removing 'diversion of /bin/udevadm to /bin/udevadm.upgrade by fake-udev' update-initramfs: deferring update (trigger activated) Setting up mountall (2.50) ... Installing new version of config file /etc/init/mountall.conf ... Setting up libcurl3-gnutls:i386 (7.32.0-1ubuntu1) ... Setting up libgpg-error0:i386 (1.12-0.2) ... Setting up apt-transport-https (0.9.9.1~ubuntu3) ... Setting up linux-libc-dev:i386 (3.11.0-7.13) ... Processing triggers for libc-bin ... Processing triggers for initramfs-tools ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-4974784', 'i386', 'saucy-proposed', '--nolog', '--batch', '--archive=ubuntu', '--dist=saucy-proposed', '-A', '--purpose=PRIMARY', '--architecture=i386', '--comp=multiverse', 'clustalw-mpi_0.15-3.dsc'] Initiating build PACKAGEBUILD-4974784 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.2.0-37-generic #58-Ubuntu SMP Thu Jan 24 15:28:10 UTC 2013 i686 Automatic build of clustalw-mpi_0.15-3 on komainu by sbuild/i386 1.170.5 Build started at 20130914-0128 ****************************************************************************** clustalw-mpi_0.15-3.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9), mpi-default-dev Checking for already installed source dependencies... debhelper: missing mpi-default-dev: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper mpi-default-dev Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: apparmor-easyprof bsdmainutils dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf-dev libasprintf0c2 libcroco3 libexpat1 libffi6 libgettextpo-dev libgettextpo0 libglib2.0-0 libibverbs-dev libibverbs1 libmagic1 libnuma1 libopenmpi-dev libopenmpi1.3 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libtorque2 libunistring0 libxml2 man-db mime-support openmpi-common po-debconf python3 python3-minimal python3.3 python3.3-minimal Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl python3-doc python3-tk python3.3-doc binfmt-support Recommended packages: curl wget lynx-cur libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: apparmor-easyprof bsdmainutils debhelper dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf-dev libasprintf0c2 libcroco3 libexpat1 libffi6 libgettextpo-dev libgettextpo0 libglib2.0-0 libibverbs-dev libibverbs1 libmagic1 libnuma1 libopenmpi-dev libopenmpi1.3 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libtorque2 libunistring0 libxml2 man-db mime-support mpi-default-dev openmpi-common po-debconf python3 python3-minimal python3.3 python3.3-minimal 0 upgraded, 40 newly installed, 0 to remove and 0 not upgraded. Need to get 15.8 MB of archives. After this operation, 55.9 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libexpat1 libffi6 libmagic1 libpython3.3-minimal mime-support libpython3.3-stdlib python3.3-minimal libasprintf0c2 libglib2.0-0 libpipeline1 libxml2 groff-base bsdmainutils man-db libcroco3 libunistring0 libgettextpo0 file libpython3-stdlib python3.3 python3-minimal dh-python python3 gettext-base libnuma1 libasprintf-dev libgettextpo-dev gettext intltool-debian po-debconf apparmor-easyprof dh-apparmor debhelper libtorque2 openmpi-common libibverbs1 libibverbs-dev libopenmpi1.3 libopenmpi-dev mpi-default-dev Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ saucy/main libexpat1 i386 2.1.0-4 [127 kB] Get:2 http://ftpmaster.internal/ubuntu/ saucy/main libffi6 i386 3.0.13-4 [15.9 kB] Get:3 http://ftpmaster.internal/ubuntu/ saucy/main libmagic1 i386 5.11-2ubuntu4 [172 kB] Get:4 http://ftpmaster.internal/ubuntu/ saucy/main libpython3.3-minimal i386 3.3.2-3ubuntu1 [582 kB] Get:5 http://ftpmaster.internal/ubuntu/ saucy/main mime-support all 3.54ubuntu1 [31.7 kB] Get:6 http://ftpmaster.internal/ubuntu/ saucy/main libpython3.3-stdlib i386 3.3.2-3ubuntu1 [2677 kB] Get:7 http://ftpmaster.internal/ubuntu/ saucy/main python3.3-minimal i386 3.3.2-3ubuntu1 [1675 kB] Get:8 http://ftpmaster.internal/ubuntu/ saucy/main libasprintf0c2 i386 0.18.1.1-10ubuntu3 [6700 B] Get:9 http://ftpmaster.internal/ubuntu/ saucy/main libglib2.0-0 i386 2.37.7-1ubuntu1 [1001 kB] Get:10 http://ftpmaster.internal/ubuntu/ saucy/main libpipeline1 i386 1.2.4-1 [26.5 kB] Get:11 http://ftpmaster.internal/ubuntu/ saucy/main libxml2 i386 2.9.1+dfsg1-3ubuntu2 [672 kB] Get:12 http://ftpmaster.internal/ubuntu/ saucy/main groff-base i386 1.22.2-3 [705 kB] Get:13 http://ftpmaster.internal/ubuntu/ saucy/main bsdmainutils i386 9.0.5ubuntu1 [197 kB] Get:14 http://ftpmaster.internal/ubuntu/ saucy/main man-db i386 2.6.5-2 [704 kB] Get:15 http://ftpmaster.internal/ubuntu/ saucy/main libcroco3 i386 0.6.8-2 [81.2 kB] Get:16 http://ftpmaster.internal/ubuntu/ saucy/main libunistring0 i386 0.9.3-5build1 [430 kB] Get:17 http://ftpmaster.internal/ubuntu/ saucy/main libgettextpo0 i386 0.18.1.1-10ubuntu3 [120 kB] Get:18 http://ftpmaster.internal/ubuntu/ saucy/main file i386 5.11-2ubuntu4 [18.0 kB] Get:19 http://ftpmaster.internal/ubuntu/ saucy/main libpython3-stdlib i386 3.3.2-14 [8186 B] Get:20 http://ftpmaster.internal/ubuntu/ saucy/main python3.3 i386 3.3.2-3ubuntu1 [123 kB] Get:21 http://ftpmaster.internal/ubuntu/ saucy/main python3-minimal i386 3.3.2-14 [26.3 kB] Get:22 http://ftpmaster.internal/ubuntu/ saucy/main dh-python all 1.20130903-1 [53.7 kB] Get:23 http://ftpmaster.internal/ubuntu/ saucy/main python3 i386 3.3.2-14 [9158 B] Get:24 http://ftpmaster.internal/ubuntu/ saucy/main gettext-base i386 0.18.1.1-10ubuntu3 [55.0 kB] Get:25 http://ftpmaster.internal/ubuntu/ saucy/main libnuma1 i386 2.0.8-3 [23.1 kB] Get:26 http://ftpmaster.internal/ubuntu/ saucy/main libasprintf-dev i386 0.18.1.1-10ubuntu3 [4396 B] Get:27 http://ftpmaster.internal/ubuntu/ saucy/main libgettextpo-dev i386 0.18.1.1-10ubuntu3 [149 kB] Get:28 http://ftpmaster.internal/ubuntu/ saucy/main gettext i386 0.18.1.1-10ubuntu3 [990 kB] Get:29 http://ftpmaster.internal/ubuntu/ saucy/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:30 http://ftpmaster.internal/ubuntu/ saucy/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:31 http://ftpmaster.internal/ubuntu/ saucy/main apparmor-easyprof all 2.8.0-0ubuntu28 [23.3 kB] Get:32 http://ftpmaster.internal/ubuntu/ saucy/main dh-apparmor all 2.8.0-0ubuntu28 [7710 B] Get:33 http://ftpmaster.internal/ubuntu/ saucy/main debhelper all 9.20130630ubuntu1 [629 kB] Get:34 http://ftpmaster.internal/ubuntu/ saucy/universe libtorque2 i386 2.4.16+dfsg-1ubuntu1 [86.6 kB] Get:35 http://ftpmaster.internal/ubuntu/ saucy/universe openmpi-common all 1.4.5-1ubuntu1 [93.3 kB] Get:36 http://ftpmaster.internal/ubuntu/ saucy/main libibverbs1 i386 1.1.6-1ubuntu2 [28.1 kB] Get:37 http://ftpmaster.internal/ubuntu/ saucy/main libibverbs-dev i386 1.1.6-1ubuntu2 [75.8 kB] Get:38 http://ftpmaster.internal/ubuntu/ saucy/universe libopenmpi1.3 i386 1.4.5-1ubuntu1 [1315 kB] Get:39 http://ftpmaster.internal/ubuntu/ saucy/universe libopenmpi-dev i386 1.4.5-1ubuntu1 [2635 kB] Get:40 http://ftpmaster.internal/ubuntu/ saucy/universe mpi-default-dev i386 1.0.1 [3642 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 15.8 MB in 1s (11.9 MB/s) Selecting previously unselected package libexpat1:i386. (Reading database ... 12071 files and directories currently installed.) Unpacking libexpat1:i386 (from .../libexpat1_2.1.0-4_i386.deb) ... Selecting previously unselected package libffi6:i386. Unpacking libffi6:i386 (from .../libffi6_3.0.13-4_i386.deb) ... Selecting previously unselected package libmagic1:i386. Unpacking libmagic1:i386 (from .../libmagic1_5.11-2ubuntu4_i386.deb) ... Selecting previously unselected package libpython3.3-minimal:i386. Unpacking libpython3.3-minimal:i386 (from .../libpython3.3-minimal_3.3.2-3ubuntu1_i386.deb) ... Selecting previously unselected package mime-support. Unpacking mime-support (from .../mime-support_3.54ubuntu1_all.deb) ... Selecting previously unselected package libpython3.3-stdlib:i386. Unpacking libpython3.3-stdlib:i386 (from .../libpython3.3-stdlib_3.3.2-3ubuntu1_i386.deb) ... Selecting previously unselected package python3.3-minimal. Unpacking python3.3-minimal (from .../python3.3-minimal_3.3.2-3ubuntu1_i386.deb) ... 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Toolchain package versions: libc6-dev_2.17-91ubuntu1 make_3.81-8.2ubuntu3 dpkg-dev_1.16.10ubuntu3 gcc-4.8_4.8.1-10ubuntu1 g++-4.8_4.8.1-10ubuntu1 binutils_2.23.52.20130828-1ubuntu1 libstdc++-4.8-dev_4.8.1-10ubuntu1 libstdc++6_4.8.1-10ubuntu1 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Sun Sep 8 01:15:59 2013 UTC using RSA key ID 2295D502 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./clustalw-mpi_0.15-3.dsc dpkg-source: info: extracting clustalw-mpi in clustalw-mpi-0.15 dpkg-source: info: unpacking clustalw-mpi_0.15.orig.tar.gz dpkg-source: info: unpacking clustalw-mpi_0.15-3.debian.tar.gz dpkg-buildpackage: source package clustalw-mpi dpkg-buildpackage: source version 0.15-3 dpkg-source --before-build clustalw-mpi-0.15 dpkg-buildpackage: host architecture i386 /usr/bin/fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean make[1]: Entering directory `/build/buildd/clustalw-mpi-0.15' /bin/rm -f *.o make[1]: Leaving directory `/build/buildd/clustalw-mpi-0.15' debian/rules override_dh_clean make[1]: Entering directory `/build/buildd/clustalw-mpi-0.15' dh_clean rm -rf clustalw-mpi make[1]: Leaving directory `/build/buildd/clustalw-mpi-0.15' debian/rules build dh build dh_testdir dh_auto_configure dh_auto_build make[1]: Entering directory `/build/buildd/clustalw-mpi-0.15' mpicc -c -g clustalw-mpi.c mpicc -c -g interface.c mpicc -c -g sequence.c mpicc -c -g showpair.c mpicc -c -g malign.c mpicc -c -g malign_mpi_progressive.c mpicc -c -g malign_mpi_pdiff.c mpicc -c -g util.c mpicc -DSERIAL_NJTREE -c -g trees.c mpicc -c -g gcgcheck.c mpicc -c -g prfalign_mpi_pdiff.c mpicc -c -g prfalign_mpi_progressive.c mpicc -DDYNAMIC_SCHEDULING_PAIRALIGN -c -g pairalign_new.c mpicc -c -g calcgapcoeff.c mpicc -c -g calcprf1.c mpicc -c -g calcprf2.c mpicc -c -g calctree.c mpicc -c -g readmat.c mpicc -c -g alnscore.c mpicc -c -g random.c mpicc -DDYNAMIC_SCHEDULING_PAIRALIGN -c -g parallel_compare.c mpicc -c -g prfalign.c mpicc -c -g stupid.c mpicc -o clustalw-mpi clustalw-mpi.o interface.o sequence.o showpair.o malign.o malign_mpi_progressive.o malign_mpi_pdiff.o util.o trees.o gcgcheck.o prfalign_mpi_pdiff.o prfalign_mpi_progressive.o pairalign_new.o calcgapcoeff.o calcprf1.o calcprf2.o calctree.o readmat.o alnscore.o random.o parallel_compare.o prfalign.o stupid.o -lm make[1]: Leaving directory `/build/buildd/clustalw-mpi-0.15' dh_auto_test /usr/bin/fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_compress dh_fixperms dh_strip dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: clustalw-mpi dh_strip debug symbol extraction: packages to act on: clustalw-mpi dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-deb: building package `clustalw-mpi-dbgsym' in `../clustalw-mpi-dbgsym_0.15-3_i386.ddeb'. dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums dh_builddeb INFO: pkgstriptranslations version 118 pkgstriptranslations: processing clustalw-mpi (in debian/clustalw-mpi); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/clustalw-mpi/DEBIAN/control, package clustalw-mpi, directory debian/clustalw-mpi pkgstripfiles: PNG optimization for package clustalw-mpi took 0 s dpkg-deb: warning: 'debian/clustalw-mpi/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `clustalw-mpi' in `../clustalw-mpi_0.15-3_i386.deb'. dpkg-genchanges -b -mUbuntu/amd64 Build Daemon >../clustalw-mpi_0.15-3_i386.changes dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build clustalw-mpi-0.15 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20130914-0128 Publishing debug debs. chroot-autobuild/build/buildd/clustalw-mpi_0.15-3_i386.deb: new debian package, version 2.0. size 133660 bytes: control archive= 1354 bytes. 1775 bytes, 37 lines control 599 bytes, 8 lines md5sums Package: clustalw-mpi Version: 0.15-3 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 382 Depends: libc6 (>= 2.7), libopenmpi1.3 Suggests: seaview, clustalx Enhances: clustalw Section: non-free/science Priority: optional Homepage: http://www.bii.a-star.edu.sg/achievements/applications/clustalw/ Description: MPI-distributed global sequence alignment with ClustalW ClustalW is a popular tool for multiple sequence alignment. The alignment is achieved via three steps: pairwise alignment, guide-tree generation and progressive alignment. ClustalW-MPI is an MPI implementation of ClustalW. Based on version 1.82 of the original ClustalW, both the pairwise and progressive alignments are parallelized with MPI, a popular message passing programming standard. The pairwise alignments can be easily parallelized since the many alignments are time independent on each other. However the progressive alignments are essentially not parallelizable because of the time dependencies between each alignment. . Here the recursive parallelism paradigm is applied to the linear space profile-profile alignment algorithm. This approach is more time efficient on computers with distributed memory architecture. Traditional approach that relies on precomputing the profile-profile score matrix has also been implemented. Results shown the latter is indeed more appropriate for shared memory multiprocessor computer. . ClustalX is suggested for its support for local realignments, seaview is a versatile editor of alignments. . The original ClustalW/ClustalX can be found at URL: http://www.clustal.org/download/pre-2/ chroot-autobuild/build/buildd/clustalw-mpi_0.15-3_i386.deb: drwxr-xr-x root/root 0 2013-09-14 01:28 ./ drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/ drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/bin/ -rwxr-xr-x root/root 324080 2013-09-14 01:28 ./usr/bin/clustalw-mpi drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/ drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/doc/ drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/doc/clustalw-mpi/ -rw-r--r-- root/root 1994 2008-05-23 07:36 ./usr/share/doc/clustalw-mpi/History -rw-r--r-- root/root 1864 2013-09-08 01:08 ./usr/share/doc/clustalw-mpi/changelog.Debian.gz -rw-r--r-- root/root 1903 2013-09-08 00:21 ./usr/share/doc/clustalw-mpi/copyright drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/doc/clustalw-mpi/examples/ -rw-r--r-- root/root 3834 2003-04-07 01:33 ./usr/share/doc/clustalw-mpi/examples/dele.input.gz -rw-r--r-- root/root 12960 2003-04-07 01:33 ./usr/share/doc/clustalw-mpi/examples/db10.input.gz -rw-r--r-- root/root 2602 2008-05-23 07:37 ./usr/share/doc/clustalw-mpi/README.clustalw-mpi.gz drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/man/ drwxr-xr-x root/root 0 2013-09-14 01:28 ./usr/share/man/man1/ -rw-r--r-- root/root 596 2013-09-14 01:28 ./usr/share/man/man1/clustalw-mpi.1.gz clustalw-mpi_0.15-3_i386.changes: Format: 1.8 Date: Sun, 08 Sep 2013 10:08:06 +0900 Source: clustalw-mpi Binary: clustalw-mpi Architecture: i386 Version: 0.15-3 Distribution: saucy-proposed Urgency: low Maintainer: Ubuntu/amd64 Build Daemon Changed-By: Charles Plessy Description: clustalw-mpi - MPI-distributed global sequence alignment with ClustalW Closes: 722073 Changes: clustalw-mpi (0.15-3) unstable; urgency=low . * Removed obsolete DM-Upload-Allowed field. * Using Debhelper 9. * Normalised VCS URLs. * Normalised debian/control using config-model. * Conforms to Policy 3.9.4. * Version link to GPL-2 in debian/copyright. * Escape minus sign in ‘debian/clustalw-mpi.1’. * Uploaded for openmpi transition (Closes: #722073). Checksums-Sha1: 4d1b9dce62d38ce7de18da882747812e4bc8683e 133660 clustalw-mpi_0.15-3_i386.deb Checksums-Sha256: 0f44c0d89cc8f262260a6bf69ad9cc56e28eec466bbf14c12222517f751b12a8 133660 clustalw-mpi_0.15-3_i386.deb Files: 5c44f6d297e3913eff7bb493e3d1948d 133660 non-free/science optional clustalw-mpi_0.15-3_i386.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20130914-0128 Build needed 00:00:08, 2608k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-4974784'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-4974784/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-4974784'] Unmounting chroot for build PACKAGEBUILD-4974784... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-4974784'] Removing build PACKAGEBUILD-4974784