RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux kishi09 3.2.0-51-highbank #77-Ubuntu SMP PREEMPT Thu Jul 25 04:09:51 UTC 2013 armv7l Buildd toolchain package versions: launchpad-buildd_121~0.IS.08.04.0 python-lpbuildd_121~0.IS.08.04.0 bzr_2.5.1-0ubuntu2 dpkg-dev_1.16.1.2ubuntu7.3. Syncing the system clock with the buildd NTP service... 2 May 14:33:35 ntpdate[11108]: adjust time server 10.211.37.1 offset 0.000131 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-5970943', '/home/buildd/filecache-default/2b732608511adadb6366d6898962714b2efa4faf'] Unpacking chroot for build PACKAGEBUILD-5970943 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-5970943'] Mounting chroot for build PACKAGEBUILD-5970943 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-5970943', 'deb http://ftpmaster.internal/ubuntu utopic main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu utopic-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu utopic-updates main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu utopic-proposed main restricted universe multiverse'] Overriding sources.list in build-PACKAGEBUILD-5970943 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-5970943', 'armhf'] Updating debian chroot for build PACKAGEBUILD-5970943 Ign http://ftpmaster.internal utopic InRelease Ign http://archive-team.internal utopic InRelease Ign http://ftpmaster.internal utopic-security InRelease Ign http://archive-team.internal utopic Release.gpg Ign http://ftpmaster.internal utopic-updates InRelease Get:1 http://archive-team.internal utopic Release [730 B] Ign http://ftpmaster.internal utopic-proposed InRelease Get:2 http://ftpmaster.internal utopic Release.gpg [933 B] Get:3 http://ftpmaster.internal utopic-security Release.gpg [933 B] Get:4 http://ftpmaster.internal utopic-updates Release.gpg [933 B] Get:5 http://ftpmaster.internal utopic-proposed Release.gpg [933 B] Get:6 http://ftpmaster.internal utopic Release [58.5 kB] Get:7 http://archive-team.internal utopic/main armhf Packages Get:8 http://ftpmaster.internal utopic-security Release [58.5 kB] Get:9 http://ftpmaster.internal utopic-updates Release [58.5 kB] Ign http://archive-team.internal utopic/main Translation-en Get:10 http://ftpmaster.internal utopic-proposed Release [58.5 kB] Get:11 http://ftpmaster.internal utopic/main armhf Packages [1302 kB] Get:12 http://ftpmaster.internal utopic/restricted armhf Packages [14 B] Get:13 http://ftpmaster.internal utopic/universe armhf Packages [5806 kB] Get:14 http://ftpmaster.internal utopic/multiverse armhf Packages [112 kB] Get:15 http://ftpmaster.internal utopic/main Translation-en [767 kB] Get:16 http://ftpmaster.internal utopic/multiverse Translation-en [102 kB] Get:17 http://ftpmaster.internal utopic/restricted Translation-en [3457 B] Get:18 http://ftpmaster.internal utopic/universe Translation-en [4161 kB] Get:19 http://ftpmaster.internal utopic-security/main armhf Packages [14 B] Get:20 http://ftpmaster.internal utopic-security/restricted armhf Packages [14 B] Get:21 http://ftpmaster.internal utopic-security/universe armhf Packages [14 B] Get:22 http://ftpmaster.internal utopic-security/multiverse armhf Packages [14 B] Get:23 http://ftpmaster.internal utopic-security/main Translation-en [14 B] Get:24 http://ftpmaster.internal utopic-security/multiverse Translation-en [14 B] Get:25 http://ftpmaster.internal utopic-security/restricted Translation-en [14 B] Get:26 http://ftpmaster.internal utopic-security/universe Translation-en [14 B] Get:27 http://ftpmaster.internal utopic-updates/main armhf Packages [14 B] Get:28 http://ftpmaster.internal utopic-updates/restricted armhf Packages [14 B] Get:29 http://ftpmaster.internal utopic-updates/universe armhf Packages [14 B] Get:30 http://ftpmaster.internal utopic-updates/multiverse armhf Packages [14 B] Get:31 http://ftpmaster.internal utopic-updates/main Translation-en [14 B] Get:32 http://ftpmaster.internal utopic-updates/multiverse Translation-en [14 B] Get:33 http://ftpmaster.internal utopic-updates/restricted Translation-en [14 B] Get:34 http://ftpmaster.internal utopic-updates/universe Translation-en [14 B] Get:35 http://ftpmaster.internal utopic-proposed/main armhf Packages [24.6 kB] Get:36 http://ftpmaster.internal utopic-proposed/restricted armhf Packages [14 B] Get:37 http://ftpmaster.internal utopic-proposed/universe armhf Packages [144 kB] Get:38 http://ftpmaster.internal utopic-proposed/multiverse armhf Packages [14 B] Get:39 http://ftpmaster.internal utopic-proposed/main Translation-en [14.6 kB] Get:40 http://ftpmaster.internal utopic-proposed/multiverse Translation-en [1113 B] Get:41 http://ftpmaster.internal utopic-proposed/restricted Translation-en [14 B] Get:42 http://ftpmaster.internal utopic-proposed/universe Translation-en [88.7 kB] Fetched 12.8 MB in 16s (786 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: initscripts libdbus-1-3 sysv-rc sysvinit-utils 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 226 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ utopic/main libdbus-1-3 armhf 1.6.18-0ubuntu5 [110 kB] Get:2 http://ftpmaster.internal/ubuntu/ utopic-proposed/main sysvinit-utils armhf 2.88dsf-41ubuntu7 [49.3 kB] Get:3 http://ftpmaster.internal/ubuntu/ utopic-proposed/main sysv-rc all 2.88dsf-41ubuntu7 [37.3 kB] Get:4 http://ftpmaster.internal/ubuntu/ utopic-proposed/main initscripts armhf 2.88dsf-41ubuntu7 [28.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 226 kB in 0s (4966 kB/s) (Reading database ... 11664 files and directories currently installed.) Preparing to unpack .../libdbus-1-3_1.6.18-0ubuntu5_armhf.deb ... Unpacking libdbus-1-3:armhf (1.6.18-0ubuntu5) over (1.6.18-0ubuntu4) ... Preparing to unpack .../sysvinit-utils_2.88dsf-41ubuntu7_armhf.deb ... Unpacking sysvinit-utils (2.88dsf-41ubuntu7) over (2.88dsf-41ubuntu6) ... Preparing to unpack .../sysv-rc_2.88dsf-41ubuntu7_all.deb ... Unpacking sysv-rc (2.88dsf-41ubuntu7) over (2.88dsf-41ubuntu6) ... Setting up sysvinit-utils (2.88dsf-41ubuntu7) ... Setting up sysv-rc (2.88dsf-41ubuntu7) ... (Reading database ... 11664 files and directories currently installed.) Preparing to unpack .../initscripts_2.88dsf-41ubuntu7_armhf.deb ... Unpacking initscripts (2.88dsf-41ubuntu7) over (2.88dsf-41ubuntu6) ... Setting up libdbus-1-3:armhf (1.6.18-0ubuntu5) ... Setting up initscripts (2.88dsf-41ubuntu7) ... Installing new version of config file /etc/init.d/ondemand ... Processing triggers for libc-bin (2.19-0ubuntu6) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-5970943', 'armhf', 'utopic-proposed', '--nolog', '--batch', '--archive=ubuntu', '--dist=utopic-proposed', '--purpose=PRIMARY', '--architecture=armhf', '--comp=multiverse', 'clustalw-mpi_0.15-3build2.dsc'] Initiating build PACKAGEBUILD-5970943 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 3.2.0-51-highbank #77-Ubuntu SMP PREEMPT Thu Jul 25 04:09:51 UTC 2013 armv7l Automatic build of clustalw-mpi_0.15-3build2 on kishi09 by sbuild/armhf 1.170.5 Build started at 20140502-1434 ****************************************************************************** clustalw-mpi_0.15-3build2.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: bsdmainutils dh-apparmor file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcr0 libcroco3 libglib2.0-0 libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpci-dev libpci3 libpipeline1 libtorque2 libunistring0 libxml2 libxml2-dev man-db openmpi-common po-debconf zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make apparmor-easyprof gettext-doc groff blcr-dkms libhwloc-contrib-plugins pkg-config less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info libhwloc-plugins xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils debhelper dh-apparmor file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcr0 libcroco3 libglib2.0-0 libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpci-dev libpci3 libpipeline1 libtorque2 libunistring0 libxml2 libxml2-dev man-db mpi-default-dev openmpi-common po-debconf zlib1g-dev 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 8487 kB of archives. After this operation, 31.4 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ utopic/main libmagic1 armhf 1:5.14-2ubuntu3 [180 kB] Get:2 http://ftpmaster.internal/ubuntu/ utopic/main libasprintf0c2 armhf 0.18.3.2-1ubuntu1 [6174 B] Get:3 http://ftpmaster.internal/ubuntu/ utopic/main libglib2.0-0 armhf 2.40.0-3 [924 kB] Get:4 http://ftpmaster.internal/ubuntu/ utopic/main libpci3 armhf 1:3.2.1-1ubuntu6 [20.4 kB] Get:5 http://ftpmaster.internal/ubuntu/ utopic/main libpipeline1 armhf 1.3.0-1 [19.6 kB] Get:6 http://ftpmaster.internal/ubuntu/ utopic/main libxml2 armhf 2.9.1+dfsg1-3ubuntu4 [483 kB] Get:7 http://ftpmaster.internal/ubuntu/ utopic/main groff-base armhf 1.22.2-5 [934 kB] Get:8 http://ftpmaster.internal/ubuntu/ utopic/main bsdmainutils armhf 9.0.5ubuntu1 [195 kB] Get:9 http://ftpmaster.internal/ubuntu/ utopic/main man-db armhf 2.6.7.1-1 [832 kB] Get:10 http://ftpmaster.internal/ubuntu/ utopic/main libcroco3 armhf 0.6.8-2ubuntu1 [69.1 kB] Get:11 http://ftpmaster.internal/ubuntu/ utopic/main libltdl7 armhf 2.4.2-1.7ubuntu1 [31.9 kB] Get:12 http://ftpmaster.internal/ubuntu/ utopic/main libunistring0 armhf 0.9.3-5ubuntu3 [251 kB] Get:13 http://ftpmaster.internal/ubuntu/ utopic/universe libhwloc5 armhf 1.8-1ubuntu1 [64.5 kB] Get:14 http://ftpmaster.internal/ubuntu/ utopic/main file armhf 1:5.14-2ubuntu3 [18.5 kB] Get:15 http://ftpmaster.internal/ubuntu/ utopic/main gettext-base armhf 0.18.3.2-1ubuntu1 [45.2 kB] Get:16 http://ftpmaster.internal/ubuntu/ utopic/main gettext armhf 0.18.3.2-1ubuntu1 [779 kB] Get:17 http://ftpmaster.internal/ubuntu/ utopic/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:18 http://ftpmaster.internal/ubuntu/ utopic/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:19 http://ftpmaster.internal/ubuntu/ utopic/main dh-apparmor all 2.8.95~2430-0ubuntu5 [11.3 kB] Get:20 http://ftpmaster.internal/ubuntu/ utopic/main debhelper all 9.20131227ubuntu1 [604 kB] Get:21 http://ftpmaster.internal/ubuntu/ utopic/universe libcr0 armhf 0.8.5-2.1 [15.9 kB] Get:22 http://ftpmaster.internal/ubuntu/ utopic/main zlib1g-dev armhf 1:1.2.8.dfsg-1ubuntu1 [176 kB] Get:23 http://ftpmaster.internal/ubuntu/ utopic/main libpci-dev armhf 1:3.2.1-1ubuntu6 [39.9 kB] Get:24 http://ftpmaster.internal/ubuntu/ utopic/universe libtorque2 armhf 2.4.16+dfsg-1.3ubuntu1 [65.0 kB] Get:25 http://ftpmaster.internal/ubuntu/ utopic/main libxml2-dev armhf 2.9.1+dfsg1-3ubuntu4 [559 kB] Get:26 http://ftpmaster.internal/ubuntu/ utopic/universe openmpi-common all 1.6.5-8 [101 kB] Get:27 http://ftpmaster.internal/ubuntu/ utopic/universe libhwloc-dev armhf 1.8-1ubuntu1 [116 kB] Get:28 http://ftpmaster.internal/ubuntu/ utopic/main libibverbs1 armhf 1.1.7-1ubuntu1 [20.0 kB] Get:29 http://ftpmaster.internal/ubuntu/ utopic/main libibverbs-dev armhf 1.1.7-1ubuntu1 [65.2 kB] Get:30 http://ftpmaster.internal/ubuntu/ utopic/universe libopenmpi1.6 armhf 1.6.5-8 [1236 kB] Get:31 http://ftpmaster.internal/ubuntu/ utopic/universe libopenmpi-dev armhf 1.6.5-8 [378 kB] Get:32 http://ftpmaster.internal/ubuntu/ utopic-proposed/universe mpi-default-dev armhf 1.0.2+nmu1ubuntu1 [3724 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 8487 kB in 1s (6915 kB/s) Selecting previously unselected package libmagic1:armhf. (Reading database ... 11664 files and directories currently installed.) Preparing to unpack .../libmagic1_1%3a5.14-2ubuntu3_armhf.deb ... Unpacking libmagic1:armhf (1:5.14-2ubuntu3) ... Selecting previously unselected package libasprintf0c2:armhf. Preparing to unpack .../libasprintf0c2_0.18.3.2-1ubuntu1_armhf.deb ... Unpacking libasprintf0c2:armhf (0.18.3.2-1ubuntu1) ... Selecting previously unselected package libglib2.0-0:armhf. Preparing to unpack .../libglib2.0-0_2.40.0-3_armhf.deb ... Unpacking libglib2.0-0:armhf (2.40.0-3) ... Selecting previously unselected package libpci3:armhf. Preparing to unpack .../libpci3_1%3a3.2.1-1ubuntu6_armhf.deb ... Unpacking libpci3:armhf (1:3.2.1-1ubuntu6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../libpipeline1_1.3.0-1_armhf.deb ... Unpacking libpipeline1:armhf (1.3.0-1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../libxml2_2.9.1+dfsg1-3ubuntu4_armhf.deb ... Unpacking libxml2:armhf (2.9.1+dfsg1-3ubuntu4) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-5_armhf.deb ... Unpacking groff-base (1.22.2-5) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5ubuntu1_armhf.deb ... Unpacking bsdmainutils (9.0.5ubuntu1) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.6.7.1-1_armhf.deb ... Unpacking man-db (2.6.7.1-1) ... Selecting previously unselected package libcroco3:armhf. Preparing to unpack .../libcroco3_0.6.8-2ubuntu1_armhf.deb ... Unpacking libcroco3:armhf (0.6.8-2ubuntu1) ... Selecting previously unselected package libltdl7:armhf. Preparing to unpack .../libltdl7_2.4.2-1.7ubuntu1_armhf.deb ... Unpacking libltdl7:armhf (2.4.2-1.7ubuntu1) ... Selecting previously unselected package libunistring0:armhf. Preparing to unpack .../libunistring0_0.9.3-5ubuntu3_armhf.deb ... Unpacking libunistring0:armhf (0.9.3-5ubuntu3) ... Selecting previously unselected package libhwloc5:armhf. Preparing to unpack .../libhwloc5_1.8-1ubuntu1_armhf.deb ... Unpacking libhwloc5:armhf (1.8-1ubuntu1) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.14-2ubuntu3_armhf.deb ... Unpacking file (1:5.14-2ubuntu3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.18.3.2-1ubuntu1_armhf.deb ... Unpacking gettext-base (0.18.3.2-1ubuntu1) ... Selecting previously unselected package gettext. Preparing to unpack .../gettext_0.18.3.2-1ubuntu1_armhf.deb ... Unpacking gettext (0.18.3.2-1ubuntu1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ... Unpacking intltool-debian (0.35.0+20060710.1) ... Selecting previously unselected package po-debconf. Preparing to unpack .../po-debconf_1.0.16+nmu2ubuntu1_all.deb ... Unpacking po-debconf (1.0.16+nmu2ubuntu1) ... Selecting previously unselected package dh-apparmor. Preparing to unpack .../dh-apparmor_2.8.95~2430-0ubuntu5_all.deb ... Unpacking dh-apparmor (2.8.95~2430-0ubuntu5) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20131227ubuntu1_all.deb ... Unpacking debhelper (9.20131227ubuntu1) ... Selecting previously unselected package libcr0. Preparing to unpack .../libcr0_0.8.5-2.1_armhf.deb ... Unpacking libcr0 (0.8.5-2.1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../zlib1g-dev_1%3a1.2.8.dfsg-1ubuntu1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.8.dfsg-1ubuntu1) ... Selecting previously unselected package libpci-dev. Preparing to unpack .../libpci-dev_1%3a3.2.1-1ubuntu6_armhf.deb ... Unpacking libpci-dev (1:3.2.1-1ubuntu6) ... Selecting previously unselected package libtorque2. Preparing to unpack .../libtorque2_2.4.16+dfsg-1.3ubuntu1_armhf.deb ... Unpacking libtorque2 (2.4.16+dfsg-1.3ubuntu1) ... Selecting previously unselected package libxml2-dev:armhf. Preparing to unpack .../libxml2-dev_2.9.1+dfsg1-3ubuntu4_armhf.deb ... Unpacking libxml2-dev:armhf (2.9.1+dfsg1-3ubuntu4) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../openmpi-common_1.6.5-8_all.deb ... Unpacking openmpi-common (1.6.5-8) ... Selecting previously unselected package libhwloc-dev:armhf. Preparing to unpack .../libhwloc-dev_1.8-1ubuntu1_armhf.deb ... Unpacking libhwloc-dev:armhf (1.8-1ubuntu1) ... Selecting previously unselected package libibverbs1. Preparing to unpack .../libibverbs1_1.1.7-1ubuntu1_armhf.deb ... Unpacking libibverbs1 (1.1.7-1ubuntu1) ... Selecting previously unselected package libibverbs-dev. Preparing to unpack .../libibverbs-dev_1.1.7-1ubuntu1_armhf.deb ... Unpacking libibverbs-dev (1.1.7-1ubuntu1) ... Selecting previously unselected package libopenmpi1.6. Preparing to unpack .../libopenmpi1.6_1.6.5-8_armhf.deb ... Unpacking libopenmpi1.6 (1.6.5-8) ... Selecting previously unselected package libopenmpi-dev. Preparing to unpack .../libopenmpi-dev_1.6.5-8_armhf.deb ... Unpacking libopenmpi-dev (1.6.5-8) ... Selecting previously unselected package mpi-default-dev. Preparing to unpack .../mpi-default-dev_1.0.2+nmu1ubuntu1_armhf.deb ... Unpacking mpi-default-dev (1.0.2+nmu1ubuntu1) ... Setting up libmagic1:armhf (1:5.14-2ubuntu3) ... Setting up libasprintf0c2:armhf (0.18.3.2-1ubuntu1) ... Setting up libglib2.0-0:armhf (2.40.0-3) ... No schema files found: doing nothing. Setting up libpci3:armhf (1:3.2.1-1ubuntu6) ... Setting up libpipeline1:armhf (1.3.0-1) ... Setting up libxml2:armhf (2.9.1+dfsg1-3ubuntu4) ... Setting up groff-base (1.22.2-5) ... Setting up bsdmainutils (9.0.5ubuntu1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up man-db (2.6.7.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcroco3:armhf (0.6.8-2ubuntu1) ... Setting up libltdl7:armhf (2.4.2-1.7ubuntu1) ... Setting up libunistring0:armhf (0.9.3-5ubuntu3) ... Setting up libhwloc5:armhf (1.8-1ubuntu1) ... Setting up file (1:5.14-2ubuntu3) ... Setting up gettext-base (0.18.3.2-1ubuntu1) ... Setting up gettext (0.18.3.2-1ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-apparmor (2.8.95~2430-0ubuntu5) ... Setting up debhelper (9.20131227ubuntu1) ... Setting up libcr0 (0.8.5-2.1) ... Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1ubuntu1) ... Setting up libpci-dev (1:3.2.1-1ubuntu6) ... Setting up libtorque2 (2.4.16+dfsg-1.3ubuntu1) ... Setting up libxml2-dev:armhf (2.9.1+dfsg1-3ubuntu4) ... Setting up openmpi-common (1.6.5-8) ... Setting up libhwloc-dev:armhf (1.8-1ubuntu1) ... Setting up libibverbs1 (1.1.7-1ubuntu1) ... Setting up libibverbs-dev (1.1.7-1ubuntu1) ... Setting up libopenmpi1.6 (1.6.5-8) ... Setting up libopenmpi-dev (1.6.5-8) ... update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode Setting up mpi-default-dev (1.0.2+nmu1ubuntu1) ... Processing triggers for libc-bin (2.19-0ubuntu6) ... Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.19-0ubuntu6 make_3.81-8.2ubuntu3 dpkg-dev_1.17.9ubuntu1 gcc-4.8_4.8.2-21ubuntu1 g++-4.8_4.8.2-21ubuntu1 binutils_2.24.51.20140425-0ubuntu2 libstdc++-4.8-dev_4.8.2-21ubuntu1 libstdc++6_4.9.0-1ubuntu3 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt gpgv: Signature made Fri May 2 14:32:37 2014 UTC using RSA key ID F1ED1345 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./clustalw-mpi_0.15-3build2.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_0.15-3build2.debian.tar.xz dpkg-buildpackage: source package clustalw-mpi dpkg-buildpackage: source version 0.15-3build2 dpkg-buildpackage: source distribution utopic dpkg-source --before-build clustalw-mpi-0.15 dpkg-buildpackage: host architecture armhf /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-arch dh build-arch dh_testdir -a dh_auto_configure -a dh_auto_build -a 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 -a /usr/bin/fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_compress -a dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: not enabling -a because /CurrentlyBuilding exists dh_strip debug symbol extraction: all non-arch-all packages for this build platform armhf: 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 /usr/bin/pkg_create_dbgsym: building ddeb package dpkg-deb: building package `clustalw-mpi-dbgsym' in `../clustalw-mpi-dbgsym_0.15-3build2_armhf.ddeb'. dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 121 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_0.15-3build2_armhf.deb'. dpkg-genchanges -B -mUbuntu/armhf Build Daemon >../clustalw-mpi_0.15-3build2_armhf.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages 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 20140502-1435 Publishing debug debs. chroot-autobuild/build/buildd/clustalw-mpi_0.15-3build2_armhf.deb: new debian package, version 2.0. size 95454 bytes: control archive= 1429 bytes. 1782 bytes, 37 lines control 599 bytes, 8 lines md5sums Package: clustalw-mpi Version: 0.15-3build2 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 362 Depends: libc6 (>= 2.7), libopenmpi1.6 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_0.15-3build2_armhf.deb: drwxr-xr-x root/root 0 2014-05-02 14:35 ./ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/doc/ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/doc/clustalw-mpi/ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/doc/clustalw-mpi/examples/ -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 3834 2003-04-07 01:33 ./usr/share/doc/clustalw-mpi/examples/dele.input.gz -rw-r--r-- root/root 1994 2008-05-23 07:36 ./usr/share/doc/clustalw-mpi/History -rw-r--r-- root/root 2602 2008-05-23 07:37 ./usr/share/doc/clustalw-mpi/README.clustalw-mpi.gz -rw-r--r-- root/root 1903 2013-09-08 00:21 ./usr/share/doc/clustalw-mpi/copyright -rw-r--r-- root/root 1998 2014-05-02 14:32 ./usr/share/doc/clustalw-mpi/changelog.Debian.gz drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/man/ drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/share/man/man1/ -rw-r--r-- root/root 596 2014-05-02 14:35 ./usr/share/man/man1/clustalw-mpi.1.gz drwxr-xr-x root/root 0 2014-05-02 14:35 ./usr/bin/ -rwxr-xr-x root/root 302880 2014-05-02 14:35 ./usr/bin/clustalw-mpi clustalw-mpi_0.15-3build2_armhf.changes: Format: 1.8 Date: Fri, 02 May 2014 10:32:11 -0400 Source: clustalw-mpi Binary: clustalw-mpi Architecture: armhf Version: 0.15-3build2 Distribution: utopic-proposed Urgency: medium Maintainer: Ubuntu/armhf Build Daemon Changed-By: Logan Rosen Description: clustalw-mpi - MPI-distributed global sequence alignment with ClustalW Changes: clustalw-mpi (0.15-3build2) utopic; urgency=medium . * No-change rebuild to drop mpich dependency on arm64. Checksums-Sha1: 6452d26f7f56806e9183c40cdf0a85885a275e00 95454 clustalw-mpi_0.15-3build2_armhf.deb Checksums-Sha256: dd973625caa5acbe61e71bc02cbcb4e5a15ed9456672686aadfc9a5b29ec1313 95454 clustalw-mpi_0.15-3build2_armhf.deb Files: b4689d7f714fc310f968d64e6ce44690 95454 non-free/science optional clustalw-mpi_0.15-3build2_armhf.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20140502-1435 Build needed 00:00:31, 2664k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-5970943'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-5970943/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-5970943'] Unmounting chroot for build PACKAGEBUILD-5970943... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-5970943'] Removing build PACKAGEBUILD-5970943