RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: 2.6.24-31-xen #1 SMP Fri Apr 27 22:22:26 UTC 2012 x86_64 Buildd toolchain package versions: launchpad-buildd_113~0.IS.08.04 python-lpbuildd_113~0.IS.08.04 bzr-builder_0.7.2+bzr156-0ubuntu1~1.IS.8.04 bzr_2.4.0-0ubuntu2~11.IS.8.04. Syncing the system clock with the buildd NTP service... 18 Oct 14:59:40 ntpdate[3377]: step time server 10.211.37.1 offset -5484158.381456 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'a8c8f1ec292e9668f430e10670b732942b4df396', '/home/buildd/filecache-default/8eacd1245734d394a672d9a8221787a881f94c87'] Uncompressing the tarball... Unpacking chroot for build a8c8f1ec292e9668f430e10670b732942b4df396 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'a8c8f1ec292e9668f430e10670b732942b4df396'] Mounting chroot for build a8c8f1ec292e9668f430e10670b732942b4df396 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'a8c8f1ec292e9668f430e10670b732942b4df396', 'deb http://ppa.launchpad.net/nebc/bio-linux/ubuntu precise main', 'deb http://ftpmaster.internal/ubuntu precise main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu precise-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu precise-updates main restricted universe multiverse'] Overriding sources.list in build-a8c8f1ec292e9668f430e10670b732942b4df396 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'a8c8f1ec292e9668f430e10670b732942b4df396', 'i386'] Updating debian chroot for build a8c8f1ec292e9668f430e10670b732942b4df396 Ign http://ftpmaster.internal precise InRelease Ign http://ftpmaster.internal precise-security InRelease Ign http://ftpmaster.internal precise-updates InRelease Get:1 http://ftpmaster.internal precise Release.gpg [198 B] Get:2 http://ftpmaster.internal precise-security Release.gpg [198 B] Get:3 http://ftpmaster.internal precise-updates Release.gpg [198 B] Get:4 http://ftpmaster.internal precise Release [49.6 kB] Ign http://ppa.launchpad.net precise InRelease Get:5 http://ftpmaster.internal precise-security Release [49.6 kB] Get:6 http://ftpmaster.internal precise-updates Release [49.6 kB] Get:7 http://ftpmaster.internal precise/main i386 Packages [1274 kB] Get:8 http://ppa.launchpad.net precise Release.gpg [316 B] Get:9 http://ppa.launchpad.net precise Release [11.9 kB] Ign http://ppa.launchpad.net precise Release Get:10 http://ppa.launchpad.net precise/main i386 Packages [8078 B] Ign http://ppa.launchpad.net precise/main TranslationIndex Get:11 http://ftpmaster.internal precise/restricted i386 Packages [8431 B] Get:12 http://ftpmaster.internal precise/universe i386 Packages [4796 kB] Ign http://ppa.launchpad.net precise/main Translation-en Get:13 http://ftpmaster.internal precise/multiverse i386 Packages [121 kB] Get:14 http://ftpmaster.internal precise/main TranslationIndex [3706 B] Get:15 http://ftpmaster.internal precise/multiverse TranslationIndex [2676 B] Get:16 http://ftpmaster.internal precise/restricted TranslationIndex [2596 B] Get:17 http://ftpmaster.internal precise/universe TranslationIndex [2922 B] Get:18 http://ftpmaster.internal precise-security/main i386 Packages [160 kB] Get:19 http://ftpmaster.internal precise-security/restricted i386 Packages [3968 B] Get:20 http://ftpmaster.internal precise-security/universe i386 Packages [39.4 kB] Get:21 http://ftpmaster.internal precise-security/multiverse i386 Packages [1399 B] Get:22 http://ftpmaster.internal precise-security/main TranslationIndex [73 B] Get:23 http://ftpmaster.internal precise-security/multiverse TranslationIndex [71 B] Get:24 http://ftpmaster.internal precise-security/restricted TranslationIndex [71 B] Get:25 http://ftpmaster.internal precise-security/universe TranslationIndex [73 B] Get:26 http://ftpmaster.internal precise-updates/main i386 Packages [374 kB] Get:27 http://ftpmaster.internal precise-updates/restricted i386 Packages [6732 B] Get:28 http://ftpmaster.internal precise-updates/universe i386 Packages [123 kB] Get:29 http://ftpmaster.internal precise-updates/multiverse i386 Packages [2536 B] Get:30 http://ftpmaster.internal precise-updates/main TranslationIndex [3564 B] Get:31 http://ftpmaster.internal precise-updates/multiverse TranslationIndex [2605 B] Get:32 http://ftpmaster.internal precise-updates/restricted TranslationIndex [2461 B] Get:33 http://ftpmaster.internal precise-updates/universe TranslationIndex [2850 B] Get:34 http://ftpmaster.internal precise/main Translation-en [726 kB] Get:35 http://ftpmaster.internal precise/multiverse Translation-en [93.4 kB] Get:36 http://ftpmaster.internal precise/restricted Translation-en [2395 B] Get:37 http://ftpmaster.internal precise/universe Translation-en [3341 kB] Get:38 http://ftpmaster.internal precise-security/main Translation-en [73.8 kB] Get:39 http://ftpmaster.internal precise-security/multiverse Translation-en [587 B] Get:40 http://ftpmaster.internal precise-security/restricted Translation-en [978 B] Get:41 http://ftpmaster.internal precise-security/universe Translation-en [24.4 kB] Get:42 http://ftpmaster.internal precise-updates/main Translation-en [179 kB] Get:43 http://ftpmaster.internal precise-updates/multiverse Translation-en [1600 B] Get:44 http://ftpmaster.internal precise-updates/restricted Translation-en [1484 B] Get:45 http://ftpmaster.internal precise-updates/universe Translation-en [73.1 kB] Fetched 11.6 MB in 8s (1358 kB/s) Reading package lists... W: GPG error: http://ppa.launchpad.net precise Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 759A8E0E5BA15160 Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: apt apt-transport-https base-files initscripts libapt-pkg4.12 libgcrypt11 libglib2.0-0 libgnutls26 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libldap-2.4-2 libsasl2-2 libsqlite3-0 libssl1.0.0 libtasn1-3 libudev0 linux-libc-dev openssl perl perl-base perl-modules python2.7-minimal sysv-rc sysvinit-utils udev upstart 28 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 18.7 MB of archives. After this operation, 37.9 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! base-files perl perl-base perl-modules libapt-pkg4.12 apt libssl1.0.0 libsqlite3-0 libglib2.0-0 libudev0 libgcrypt11 libtasn1-3 libgnutls26 libk5crypto3 libgssapi-krb5-2 libkrb5-3 libkrb5support0 libsasl2-2 libldap-2.4-2 python2.7-minimal sysvinit-utils sysv-rc initscripts upstart udev apt-transport-https linux-libc-dev openssl Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise-updates/main base-files i386 6.5ubuntu6.2 [65.1 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise-updates/main perl i386 5.14.2-6ubuntu2.1 [3685 kB] Get:3 http://ftpmaster.internal/ubuntu/ precise-updates/main perl-base i386 5.14.2-6ubuntu2.1 [1472 kB] Get:4 http://ftpmaster.internal/ubuntu/ precise-updates/main perl-modules all 5.14.2-6ubuntu2.1 [3396 kB] Get:5 http://ftpmaster.internal/ubuntu/ precise-security/main libapt-pkg4.12 i386 0.8.16~exp12ubuntu10.2 [940 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise-security/main apt i386 0.8.16~exp12ubuntu10.2 [1102 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise-security/main libssl1.0.0 i386 1.0.1-4ubuntu5.3 [1006 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise-updates/main libsqlite3-0 i386 3.7.9-2ubuntu1.1 [354 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise-updates/main libglib2.0-0 i386 2.32.3-0ubuntu1 [1187 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise-updates/main libudev0 i386 175-0ubuntu9.1 [33.6 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise-updates/main libgcrypt11 i386 1.5.0-3ubuntu0.1 [281 kB] Get:12 http://ftpmaster.internal/ubuntu/ precise-security/main libtasn1-3 i386 2.10-1ubuntu1.1 [43.8 kB] Get:13 http://ftpmaster.internal/ubuntu/ precise-updates/main libgnutls26 i386 2.12.14-5ubuntu3.1 [448 kB] Get:14 http://ftpmaster.internal/ubuntu/ precise-security/main libk5crypto3 i386 1.10+dfsg~beta1-2ubuntu0.3 [77.4 kB] Get:15 http://ftpmaster.internal/ubuntu/ precise-security/main libgssapi-krb5-2 i386 1.10+dfsg~beta1-2ubuntu0.3 [120 kB] Get:16 http://ftpmaster.internal/ubuntu/ precise-security/main libkrb5-3 i386 1.10+dfsg~beta1-2ubuntu0.3 [366 kB] Get:17 http://ftpmaster.internal/ubuntu/ precise-security/main libkrb5support0 i386 1.10+dfsg~beta1-2ubuntu0.3 [23.9 kB] Get:18 http://ftpmaster.internal/ubuntu/ precise-updates/main libsasl2-2 i386 2.1.25.dfsg1-3ubuntu0.1 [69.0 kB] Get:19 http://ftpmaster.internal/ubuntu/ precise-updates/main libldap-2.4-2 i386 2.4.28-1.1ubuntu4.1 [186 kB] Get:20 http://ftpmaster.internal/ubuntu/ precise-updates/main python2.7-minimal i386 2.7.3-0ubuntu3.1 [1693 kB] Get:21 http://ftpmaster.internal/ubuntu/ precise-updates/main sysvinit-utils i386 2.88dsf-13.10ubuntu11.1 [58.4 kB] Get:22 http://ftpmaster.internal/ubuntu/ precise-updates/main sysv-rc all 2.88dsf-13.10ubuntu11.1 [44.6 kB] Get:23 http://ftpmaster.internal/ubuntu/ precise-updates/main initscripts i386 2.88dsf-13.10ubuntu11.1 [28.1 kB] Get:24 http://ftpmaster.internal/ubuntu/ precise-updates/main upstart i386 1.5-0ubuntu7 [313 kB] Get:25 http://ftpmaster.internal/ubuntu/ precise-updates/main udev i386 175-0ubuntu9.1 [349 kB] Get:26 http://ftpmaster.internal/ubuntu/ precise-security/main apt-transport-https i386 0.8.16~exp12ubuntu10.2 [16.3 kB] Get:27 http://ftpmaster.internal/ubuntu/ precise-security/main linux-libc-dev i386 3.2.0-29.46 [871 kB] Get:28 http://ftpmaster.internal/ubuntu/ precise-security/main openssl i386 1.0.1-4ubuntu5.3 [520 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 18.7 MB in 1s (12.6 MB/s) (Reading database ... 12281 files and directories currently installed.) Preparing to replace base-files 6.5ubuntu6 (using .../base-files_6.5ubuntu6.2_i386.deb) ... Unpacking replacement base-files ... Setting up base-files (6.5ubuntu6.2) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 12281 files and directories currently installed.) Preparing to replace perl 5.14.2-6ubuntu2 (using .../perl_5.14.2-6ubuntu2.1_i386.deb) ... Unpacking replacement perl ... Preparing to replace perl-base 5.14.2-6ubuntu2 (using .../perl-base_5.14.2-6ubuntu2.1_i386.deb) ... Unpacking replacement perl-base ... Setting up perl-base (5.14.2-6ubuntu2.1) ... (Reading database ... 12281 files and directories currently installed.) Preparing to replace perl-modules 5.14.2-6ubuntu2 (using .../perl-modules_5.14.2-6ubuntu2.1_all.deb) ... Unpacking replacement perl-modules ... Preparing to replace libapt-pkg4.12 0.8.16~exp12ubuntu10 (using .../libapt-pkg4.12_0.8.16~exp12ubuntu10.2_i386.deb) ... Unpacking replacement libapt-pkg4.12 ... Setting up libapt-pkg4.12 (0.8.16~exp12ubuntu10.2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12281 files and directories currently installed.) Preparing to replace apt 0.8.16~exp12ubuntu10 (using .../apt_0.8.16~exp12ubuntu10.2_i386.deb) ... Unpacking replacement apt ... Setting up apt (0.8.16~exp12ubuntu10.2) ... gpg: key 437D05B5: "Ubuntu Archive Automatic Signing Key " not changed gpg: key FBB75451: "Ubuntu CD Image Automatic Signing Key " not changed gpg: Total number processed: 2 gpg: unchanged: 2 (Reading database ... 12281 files and directories currently installed.) Preparing to replace libssl1.0.0 1.0.1-4ubuntu3 (using .../libssl1.0.0_1.0.1-4ubuntu5.3_i386.deb) ... Unpacking replacement libssl1.0.0 ... Setting up libssl1.0.0 (1.0.1-4ubuntu5.3) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12281 files and directories currently installed.) Preparing to replace libsqlite3-0 3.7.9-2ubuntu1 (using .../libsqlite3-0_3.7.9-2ubuntu1.1_i386.deb) ... Unpacking replacement libsqlite3-0 ... Preparing to replace libglib2.0-0 2.32.1-0ubuntu2 (using .../libglib2.0-0_2.32.3-0ubuntu1_i386.deb) ... Unpacking replacement libglib2.0-0 ... Preparing to replace libudev0 175-0ubuntu9 (using .../libudev0_175-0ubuntu9.1_i386.deb) ... Unpacking replacement libudev0 ... Preparing to replace libgcrypt11 1.5.0-3 (using .../libgcrypt11_1.5.0-3ubuntu0.1_i386.deb) ... Unpacking replacement libgcrypt11 ... Preparing to replace libtasn1-3 2.10-1ubuntu1 (using .../libtasn1-3_2.10-1ubuntu1.1_i386.deb) ... Unpacking replacement libtasn1-3 ... Preparing to replace libgnutls26 2.12.14-5ubuntu3 (using .../libgnutls26_2.12.14-5ubuntu3.1_i386.deb) ... Unpacking replacement libgnutls26 ... Preparing to replace libk5crypto3 1.10+dfsg~beta1-2 (using .../libk5crypto3_1.10+dfsg~beta1-2ubuntu0.3_i386.deb) ... Unpacking replacement libk5crypto3 ... Preparing to replace libgssapi-krb5-2 1.10+dfsg~beta1-2 (using .../libgssapi-krb5-2_1.10+dfsg~beta1-2ubuntu0.3_i386.deb) ... Unpacking replacement libgssapi-krb5-2 ... Preparing to replace libkrb5-3 1.10+dfsg~beta1-2 (using .../libkrb5-3_1.10+dfsg~beta1-2ubuntu0.3_i386.deb) ... Unpacking replacement libkrb5-3 ... Preparing to replace libkrb5support0 1.10+dfsg~beta1-2 (using .../libkrb5support0_1.10+dfsg~beta1-2ubuntu0.3_i386.deb) ... Unpacking replacement libkrb5support0 ... Preparing to replace libsasl2-2 2.1.25.dfsg1-3 (using .../libsasl2-2_2.1.25.dfsg1-3ubuntu0.1_i386.deb) ... Unpacking replacement libsasl2-2 ... Preparing to replace libldap-2.4-2 2.4.28-1.1ubuntu4 (using .../libldap-2.4-2_2.4.28-1.1ubuntu4.1_i386.deb) ... Unpacking replacement libldap-2.4-2 ... Preparing to replace python2.7-minimal 2.7.3-0ubuntu3 (using .../python2.7-minimal_2.7.3-0ubuntu3.1_i386.deb) ... Unpacking replacement python2.7-minimal ... Setting up python2.7-minimal (2.7.3-0ubuntu3.1) ... (Reading database ... 12281 files and directories currently installed.) Preparing to replace sysvinit-utils 2.88dsf-13.10ubuntu11 (using .../sysvinit-utils_2.88dsf-13.10ubuntu11.1_i386.deb) ... Unpacking replacement sysvinit-utils ... Preparing to replace sysv-rc 2.88dsf-13.10ubuntu11 (using .../sysv-rc_2.88dsf-13.10ubuntu11.1_all.deb) ... Unpacking replacement sysv-rc ... Preparing to replace initscripts 2.88dsf-13.10ubuntu11 (using .../initscripts_2.88dsf-13.10ubuntu11.1_i386.deb) ... Unpacking replacement initscripts ... Preparing to replace upstart 1.5-0ubuntu5 (using .../upstart_1.5-0ubuntu7_i386.deb) ... Unpacking replacement upstart ... Preparing to replace udev 175-0ubuntu9 (using .../udev_175-0ubuntu9.1_i386.deb) ... Adding 'diversion of /sbin/udevadm to /sbin/udevadm.upgrade by fake-udev' Unpacking replacement udev ... Preparing to replace apt-transport-https 0.8.16~exp12ubuntu10 (using .../apt-transport-https_0.8.16~exp12ubuntu10.2_i386.deb) ... Unpacking replacement apt-transport-https ... Preparing to replace linux-libc-dev 3.2.0-23.36 (using .../linux-libc-dev_3.2.0-29.46_i386.deb) ... Unpacking replacement linux-libc-dev ... Preparing to replace openssl 1.0.1-4ubuntu3 (using .../openssl_1.0.1-4ubuntu5.3_i386.deb) ... Unpacking replacement openssl ... Setting up libsqlite3-0 (3.7.9-2ubuntu1.1) ... Setting up libglib2.0-0 (2.32.3-0ubuntu1) ... No schema files found: doing nothing. Setting up libudev0 (175-0ubuntu9.1) ... Setting up libgcrypt11 (1.5.0-3ubuntu0.1) ... Setting up libtasn1-3 (2.10-1ubuntu1.1) ... Setting up libgnutls26 (2.12.14-5ubuntu3.1) ... Setting up libkrb5support0 (1.10+dfsg~beta1-2ubuntu0.3) ... Setting up libk5crypto3 (1.10+dfsg~beta1-2ubuntu0.3) ... Setting up libkrb5-3 (1.10+dfsg~beta1-2ubuntu0.3) ... Setting up libgssapi-krb5-2 (1.10+dfsg~beta1-2ubuntu0.3) ... Setting up libsasl2-2 (2.1.25.dfsg1-3ubuntu0.1) ... Setting up libldap-2.4-2 (2.4.28-1.1ubuntu4.1) ... Setting up sysvinit-utils (2.88dsf-13.10ubuntu11.1) ... Setting up sysv-rc (2.88dsf-13.10ubuntu11.1) ... Setting up apt-transport-https (0.8.16~exp12ubuntu10.2) ... Setting up linux-libc-dev (3.2.0-29.46) ... Setting up openssl (1.0.1-4ubuntu5.3) ... Setting up perl-modules (5.14.2-6ubuntu2.1) ... Setting up upstart (1.5-0ubuntu7) ... Installing new version of config file /etc/logrotate.d/upstart ... Setting up udev (175-0ubuntu9.1) ... invoke-rc.d: policy-rc.d denied execution of restart. Removing 'diversion of /sbin/udevadm to /sbin/udevadm.upgrade by fake-udev' update-initramfs: deferring update (trigger activated) Setting up perl (5.14.2-6ubuntu2.1) ... Setting up initscripts (2.88dsf-13.10ubuntu11.1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Processing triggers for initramfs-tools ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'a8c8f1ec292e9668f430e10670b732942b4df396', 'i386', 'precise', '--nolog', '--batch', '--archive=ubuntu', '--dist=precise', '-A', '--purpose=PPA', '--architecture=i386', '--comp=main', 'microbiomeutil_20101212-1ubuntu5.dsc'] Initiating build a8c8f1ec292e9668f430e10670b732942b4df396 with 2 jobs across 2 processor cores. Automatic build of microbiomeutil_20101212-1ubuntu5 on lansones by sbuild/i386 1.170.5 Build started at 20120816-0339 ****************************************************************************** microbiomeutil_20101212-1ubuntu5.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 7.0.50~), cdbfasta, quilt (>= 0.46-7~) Checking for already installed source dependencies... debhelper: missing cdbfasta: missing quilt: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper cdbfasta quilt Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils dh-apparmor diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libgettextpo0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl procmail graphviz default-mta mail-transport-agent Recommended packages: curl wget lynx-cur xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils cdbfasta debhelper dh-apparmor diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libgettextpo0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf quilt 0 upgraded, 20 newly installed, 0 to remove and 0 not upgraded. Need to get 6072 kB of archives. After this operation, 18.6 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libpipeline1 libxml2 libcroco3 libunistring0 libgettextpo0 libmagic1 file bsdmainutils gettext-base groff-base man-db html2text gettext intltool-debian po-debconf dh-apparmor debhelper diffstat quilt cdbfasta Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise/main libpipeline1 i386 1.2.1-1 [26.1 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise-security/main libxml2 i386 2.7.8.dfsg-5.1ubuntu4.1 [662 kB] Get:3 http://ftpmaster.internal/ubuntu/ precise/main libcroco3 i386 0.6.5-1 [99.7 kB] Get:4 http://ppa.launchpad.net/nebc/bio-linux/ubuntu/ precise/main cdbfasta i386 20100722-1ubuntu5 [76.0 kB] Get:5 http://ftpmaster.internal/ubuntu/ precise/main libunistring0 i386 0.9.3-5 [432 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise/main libgettextpo0 i386 0.18.1.1-5ubuntu3 [118 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise/main libmagic1 i386 5.09-2 [219 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise/main file i386 5.09-2 [19.4 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise/main bsdmainutils i386 8.2.3ubuntu1 [194 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise/main gettext-base i386 0.18.1.1-5ubuntu3 [58.2 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise/main groff-base i386 1.21-7 [1024 kB] Get:12 http://ftpmaster.internal/ubuntu/ precise/main man-db i386 2.6.1-2 [747 kB] Get:13 http://ftpmaster.internal/ubuntu/ precise/main html2text i386 1.3.2a-15 [101 kB] Get:14 http://ftpmaster.internal/ubuntu/ precise/main gettext i386 0.18.1.1-5ubuntu3 [1122 kB] Get:15 http://ftpmaster.internal/ubuntu/ precise/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:16 http://ftpmaster.internal/ubuntu/ precise/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:17 http://ftpmaster.internal/ubuntu/ precise-security/main dh-apparmor all 2.7.102-0ubuntu3.1 [9546 B] Get:18 http://ftpmaster.internal/ubuntu/ precise/main debhelper all 9.20120115ubuntu3 [616 kB] Get:19 http://ftpmaster.internal/ubuntu/ precise/main diffstat i386 1.54-1 [21.3 kB] Get:20 http://ftpmaster.internal/ubuntu/ precise/main quilt all 0.50-2 [287 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6072 kB in 0s (11.0 MB/s) Selecting previously unselected package libpipeline1. (Reading database ... 12283 files and directories currently installed.) Unpacking libpipeline1 (from .../libpipeline1_1.2.1-1_i386.deb) ... Selecting previously unselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5.1ubuntu4.1_i386.deb) ... Selecting previously unselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.5-1_i386.deb) ... Selecting previously unselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-5_i386.deb) ... Selecting previously unselected package libgettextpo0. Unpacking libgettextpo0 (from .../libgettextpo0_0.18.1.1-5ubuntu3_i386.deb) ... Selecting previously unselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_5.09-2_i386.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.09-2_i386.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.2.3ubuntu1_i386.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5ubuntu3_i386.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-7_i386.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.1-2_i386.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5ubuntu3_i386.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2ubuntu1_all.deb) ... Selecting previously unselected package dh-apparmor. Unpacking dh-apparmor (from .../dh-apparmor_2.7.102-0ubuntu3.1_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120115ubuntu3_all.deb) ... Selecting previously unselected package diffstat. Unpacking diffstat (from .../diffstat_1.54-1_i386.deb) ... Selecting previously unselected package quilt. Unpacking quilt (from .../archives/quilt_0.50-2_all.deb) ... Selecting previously unselected package cdbfasta. Unpacking cdbfasta (from .../cdbfasta_20100722-1ubuntu5_i386.deb) ... Setting up libpipeline1 (1.2.1-1) ... Setting up libxml2 (2.7.8.dfsg-5.1ubuntu4.1) ... Setting up libcroco3 (0.6.5-1) ... Setting up libunistring0 (0.9.3-5) ... Setting up libgettextpo0 (0.18.1.1-5ubuntu3) ... Setting up libmagic1 (5.09-2) ... Setting up file (5.09-2) ... Setting up bsdmainutils (8.2.3ubuntu1) ... 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 gettext-base (0.18.1.1-5ubuntu3) ... Setting up groff-base (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-apparmor (2.7.102-0ubuntu3.1) ... Setting up debhelper (9.20120115ubuntu3) ... Setting up diffstat (1.54-1) ... Setting up quilt (0.50-2) ... Setting up cdbfasta (20100722-1ubuntu5) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.15-0ubuntu10 make_3.81-8.1ubuntu1 dpkg-dev_1.16.1.2ubuntu7 gcc-4.6_4.6.3-1ubuntu5 g++-4.6_4.6.3-1ubuntu5 binutils_2.22-6ubuntu1 libstdc++6-4.6-dev_4.6.3-1ubuntu5 libstdc++6_4.6.3-1ubuntu5 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Wed Nov 2 17:37:15 2011 UTC using DSA key ID 113960C5 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./microbiomeutil_20101212-1ubuntu5.dsc dpkg-source: info: extracting microbiomeutil in microbiomeutil-20101212 dpkg-source: info: unpacking microbiomeutil_20101212.orig.tar.gz dpkg-source: info: unpacking microbiomeutil_20101212-1ubuntu5.debian.tar.gz dpkg-source: info: applying fix_perl_interpreter.patch dpkg-source: info: applying find_relocated_resources.patch dpkg-source: info: applying find_relocated_libraries.patch dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor): -D_FORTIFY_SOURCE=2 dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor): -Wl,-Bsymbolic-functions -Wl,-z,relro dpkg-buildpackage: source package microbiomeutil dpkg-buildpackage: source version 20101212-1ubuntu5 dpkg-source --before-build microbiomeutil-20101212 dpkg-buildpackage: host architecture i386 /usr/bin/fakeroot debian/rules clean dh clean --with quilt dh_testdir dh_auto_clean make[1]: Entering directory `/build/buildd/microbiomeutil-20101212' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ do echo '<<<' $i '>>>'; cd $X/$i; make clean; done <<< NAST-iEr >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/NAST-iEr' cd ./sample_data; make clean make[3]: Entering directory `/build/buildd/microbiomeutil-20101212/NAST-iEr/sample_data' rm -f tmp.* make[3]: Leaving directory `/build/buildd/microbiomeutil-20101212/NAST-iEr/sample_data' rm -f NAST-iEr make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/NAST-iEr' <<< ChimeraSlayer >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer' cd ./sample_data; make clean make[3]: Entering directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer/sample_data' rm -f chims.NAST.* rm -f sample_DB.NAST.cidx rm -f sample_DB.fasta.* rm -f tmp.* rm -f formatdb.log make[3]: Leaving directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer/sample_data' make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer' <<< WigeoN >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/WigeoN' cd ./sample_data; make clean make[3]: Entering directory `/build/buildd/microbiomeutil-20101212/WigeoN/sample_data' rm -f tmp.* rm -f chims.NAST.* make[3]: Leaving directory `/build/buildd/microbiomeutil-20101212/WigeoN/sample_data' make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/WigeoN' <<< RESOURCES >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/RESOURCES' rm -f *fasta.* make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/RESOURCES' make[1]: Leaving directory `/build/buildd/microbiomeutil-20101212' dh_quilt_unpatch Removing patch find_relocated_libraries.patch Restoring ChimeraSlayer/ChimeraSlayer.pl Restoring WigeoN/run_WigeoN.pl Restoring WigeoN/run_CM_to_WigeoN.pl Restoring WigeoN/WigeoN.pl Restoring NAST-iEr/run_NAST-iEr.pl Removing patch find_relocated_resources.patch Restoring ChimeraSlayer/ChimeraSlayer.pl Restoring ChimeraSlayer/util/CS_add_taxonomy.pl Restoring WigeoN/run_WigeoN.pl Restoring NAST-iEr/run_NAST-iEr.pl Removing patch fix_perl_interpreter.patch Restoring ChimeraSlayer/PerlLib/Fasta_reader.pm Restoring RESOURCES/genus_counter.pl Restoring WigeoN/PerlLib/Fasta_reader.pm Restoring NAST-iEr/PerlLib/Fasta_reader.pm No patches applied dh_clean debian/rules build dh build --with quilt dh_testdir dh_quilt_patch Applying patch fix_perl_interpreter.patch patching file NAST-iEr/PerlLib/Fasta_reader.pm patching file ChimeraSlayer/PerlLib/Fasta_reader.pm patching file WigeoN/PerlLib/Fasta_reader.pm patching file RESOURCES/genus_counter.pl Applying patch find_relocated_resources.patch patching file ChimeraSlayer/ChimeraSlayer.pl patching file ChimeraSlayer/util/CS_add_taxonomy.pl patching file NAST-iEr/run_NAST-iEr.pl patching file WigeoN/run_WigeoN.pl Applying patch find_relocated_libraries.patch patching file ChimeraSlayer/ChimeraSlayer.pl patching file NAST-iEr/run_NAST-iEr.pl patching file WigeoN/WigeoN.pl patching file WigeoN/run_CM_to_WigeoN.pl patching file WigeoN/run_WigeoN.pl Now at patch find_relocated_libraries.patch dh_auto_configure dh_auto_build make[1]: Entering directory `/build/buildd/microbiomeutil-20101212' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ do echo '<<<' $i '>>>'; cd $X/$i; make all; done <<< NAST-iEr >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/NAST-iEr' gcc NAST-iEr.c -o NAST-iEr make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/NAST-iEr' <<< ChimeraSlayer >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/ChimeraSlayer' <<< WigeoN >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/WigeoN' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/WigeoN' <<< RESOURCES >>> make[2]: Entering directory `/build/buildd/microbiomeutil-20101212/RESOURCES' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/microbiomeutil-20101212/RESOURCES' make[1]: Leaving directory `/build/buildd/microbiomeutil-20101212' debian/rules override_dh_auto_test make[1]: Entering directory `/build/buildd/microbiomeutil-20101212' true make[1]: Leaving directory `/build/buildd/microbiomeutil-20101212' /usr/bin/fakeroot debian/rules binary dh binary --with quilt dh_testroot dh_prep dh_installdirs dh_auto_install debian/rules override_dh_install make[1]: Entering directory `/build/buildd/microbiomeutil-20101212' #Included -v to debug remote build dh_installdirs -v -A /usr/bin install -d debian/microbiomeutil/usr/share/microbiomeutil debian/microbiomeutil/usr/bin install -d debian/chimeraslayer/usr/bin install -d debian/nast-ier/usr/bin install -d debian/wigeon/usr/bin install -d debian/microbiomeutil-data/usr/bin dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pchimeraslayer ChimeraSlayer /usr/lib dh_link -pchimeraslayer /usr/lib/ChimeraSlayer/ChimeraSlayer.pl /usr/bin/chimeraslayer dh_install -pchimeraslayer ChimeraSlayer/LICENSE /usr/share/doc/chimeraslayer dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pwigeon WigeoN /usr/lib dh_link -pwigeon /usr/lib/WigeoN/run_WigeoN.pl /usr/bin/wigeon dh_link -pwigeon /usr/lib/WigeoN/run_CM_to_WigeoN.pl /usr/bin/cm_to_wigeon dh_install -pwigeon WigeoN/LICENSE /usr/share/doc/wigeon dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pnast-ier NAST-iEr /usr/lib dh_link -pnast-ier /usr/lib/NAST-iEr/run_NAST-iEr.pl /usr/bin/nast-ier dh_install -pnast-ier NAST-iEr/LICENSE /usr/share/doc/nast-ier dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pmicrobiomeutil-data RESOURCES /usr/share/microbiomeutil-data dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pmicrobiomeutil-data ChimeraSlayer/sample_data/* /usr/share/microbiomeutil-data/ChimeraSlayer dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pmicrobiomeutil-data WigeoN/sample_data/* /usr/share/microbiomeutil-data/ChimeraSlayer dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c -pmicrobiomeutil-data NAST-iEr/sample_data/* /usr/share/microbiomeutil-data/ChimeraSlayer make[1]: Leaving directory `/build/buildd/microbiomeutil-20101212' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installcatalogs dh_installcron dh_installdebconf dh_installemacsen dh_installifupdown dh_installinfo dh_installinit dh_installmenu dh_installmime dh_installmodules dh_installlogcheck dh_installlogrotate dh_installpam dh_installppp dh_installudev dh_installwm dh_installxfonts dh_installgsettings dh_bugfiles dh_ucf dh_lintian dh_gconf dh_icons dh_perl dh_usrlocal dh_link dh_compress debian/rules override_dh_fixperms make[1]: Entering directory `/build/buildd/microbiomeutil-20101212' dh_fixperms find debian -type f -name '*.pm' -print0 | xargs -0r chmod a-x find debian -type f -name 'genus_counter.pl' -print0 | xargs -0r chmod a+x make[1]: Leaving directory `/build/buildd/microbiomeutil-20101212' dh_strip dh_strip debug symbol extraction: disabling for PPA build dh_strip debug symbol extraction: not doing anything since NO_PKG_MANGLE is given dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package chimeraslayer: unused substitution variable ${perl:Depends} dpkg-gencontrol: warning: package nast-ier: unused substitution variable ${perl:Depends} dpkg-gencontrol: warning: package wigeon: unused substitution variable ${perl:Depends} dpkg-gencontrol: warning: package microbiomeutil-data: unused substitution variable ${perl:Depends} dh_md5sums dh_builddeb INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `microbiomeutil' in `../microbiomeutil_20101212-1ubuntu5_all.deb'. INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `chimeraslayer' in `../chimeraslayer_20101212-1ubuntu5_all.deb'. INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `nast-ier' in `../nast-ier_20101212-1ubuntu5_i386.deb'. INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `wigeon' in `../wigeon_20101212-1ubuntu5_all.deb'. INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `microbiomeutil-data' in `../microbiomeutil-data_20101212-1ubuntu5_all.deb'. dpkg-genchanges -b -mUbuntu Build Daemon >../microbiomeutil_20101212-1ubuntu5_i386.changes dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build microbiomeutil-20101212 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20120816-0340 chroot-autobuild/build/buildd/microbiomeutil_20101212-1ubuntu5_all.deb: new debian package, version 2.0. size 228140 bytes: control archive= 927 bytes. 727 bytes, 17 lines control 858 bytes, 10 lines md5sums Package: microbiomeutil Version: 20101212-1ubuntu5 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 299 Depends: chimeraslayer, nast-ier, wigeon Section: science Priority: extra Homepage: http://microbiomeutil.sourceforge.net/ Description: Microbiome Analysis Utilities The microbiomeutil package comes with the following utilities: * ChimeraSlayer: ChimeraSlayer for chimera detection. * NAST-iEr: NAST-based alignment tool. * WigeoN: A reimplementation of the Pintail 16S anomaly detection utility * RESOURCES: Reference 16S sequences and NAST-alignments that the tools above leverage. chroot-autobuild/build/buildd/chimeraslayer_20101212-1ubuntu5_all.deb: new debian package, version 2.0. size 35630 bytes: control archive= 1187 bytes. 390 bytes, 12 lines control 1873 bytes, 22 lines md5sums Package: chimeraslayer Source: microbiomeutil Version: 20101212-1ubuntu5 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 178 Depends: perl, microbiomeutil-data, cdbfasta Section: science Priority: extra Homepage: http://microbiomeutil.sourceforge.net/ Description: Chimera detection Part of the microbiomeutil package chroot-autobuild/build/buildd/nast-ier_20101212-1ubuntu5_i386.deb: new debian package, version 2.0. size 21072 bytes: control archive= 1131 bytes. 410 bytes, 12 lines control 1467 bytes, 19 lines md5sums Package: nast-ier Source: microbiomeutil Version: 20101212-1ubuntu5 Architecture: i386 Maintainer: Debian Med Packaging Team Installed-Size: 117 Depends: libc6 (>= 2.1), perl, microbiomeutil-data, cdbfasta Section: science Priority: extra Homepage: http://microbiomeutil.sourceforge.net/ Description: NAST-based alignment tool Part of the microbiomeutil package chroot-autobuild/build/buildd/wigeon_20101212-1ubuntu5_all.deb: new debian package, version 2.0. size 43014 bytes: control archive= 1120 bytes. 419 bytes, 12 lines control 1393 bytes, 20 lines md5sums Package: wigeon Source: microbiomeutil Version: 20101212-1ubuntu5 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 187 Depends: perl, microbiomeutil-data Section: science Priority: extra Homepage: http://microbiomeutil.sourceforge.net/ Description: A reimplementation of the Pintail 16S anomaly detection utility Part of the microbiomeutil package chroot-autobuild/build/buildd/microbiomeutil-data_20101212-1ubuntu5_all.deb: new debian package, version 2.0. size 3983078 bytes: control archive= 674 bytes. 372 bytes, 10 lines control 624 bytes, 7 lines md5sums Package: microbiomeutil-data Source: microbiomeutil Version: 20101212-1ubuntu5 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 48170 Section: science Priority: extra Homepage: http://microbiomeutil.sourceforge.net/ Description: Reference 16S sequences and NAST-alignments used by microbiomeutil tools chroot-autobuild/build/buildd/microbiomeutil_20101212-1ubuntu5_all.deb: drwxr-xr-x root/root 0 2012-08-16 03:40 ./ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/bin/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/microbiomeutil/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/microbiomeutil/docs/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/microbiomeutil/docs/images/ -rw-r--r-- root/root 47376 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/images/broad-hmp-banner.gif -rw-r--r-- root/root 11518 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/images/top-hmp.jpg -rw-r--r-- root/root 171019 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/images/broad-logo.jpg -rw-r--r-- root/root 4895 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/microbiomeutil.asciidoc.gz -rw-r--r-- root/root 22511 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/microbiomeutil.html -rw-r--r-- root/root 3113 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/docs/old.microbiomeutil.asciidoc.gz -rw-r--r-- root/root 450 2011-04-04 16:09 ./usr/share/doc/microbiomeutil/README.Debian -rw-r--r-- root/root 601 2011-11-02 17:25 ./usr/share/doc/microbiomeutil/changelog.Debian.gz -rw-r--r-- root/root 1286 2010-12-12 13:36 ./usr/share/doc/microbiomeutil/README -rw-r--r-- root/root 1948 2011-04-14 11:39 ./usr/share/doc/microbiomeutil/copyright drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/microbiomeutil/ lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/WigeoN -> ChimeraSlayer lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/NAST-iEr -> ChimeraSlayer chroot-autobuild/build/buildd/chimeraslayer_20101212-1ubuntu5_all.deb: drwxr-xr-x root/root 0 2012-08-16 03:40 ./ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/bin/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/ -rwxr-xr-x root/root 7405 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/ChimeraSlayer.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/ChimeraPhyloChecker/ -rwxr-xr-x root/root 6225 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraPhyloChecker/CPS_to_CPC.pl -rwxr-xr-x root/root 26686 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/PerlLib/ -rw-r--r-- root/root 6452 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/PerlLib/TaxonomyGraph.pm -rw-r--r-- root/root 2980 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/PerlLib/Fasta_reader.pm -rw-r--r-- root/root 3548 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/PerlLib/BHStats.pm -rw-r--r-- root/root 2453 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/PerlLib/CdbTools.pm -rw-r--r-- root/root 10295 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/PerlLib/NAST_to_Eco_coords.pm -rw-r--r-- root/root 3152 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/PerlLib/AlignCompare.pm drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/util/ -rwxr-xr-x root/root 2588 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/util/CS_add_taxonomy.pl -rwxr-xr-x root/root 2515 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/util/merge_CS_n_CM_breakpoints.pl -rwxr-xr-x root/root 609 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/util/breakpoint_to_profile.pl -rwxr-xr-x root/root 690 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/util/merge_CM_CS_outputs.pl -rwxr-xr-x root/root 9161 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/util/CMCS_to_treeImg.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/ -rwxr-xr-x root/root 2406 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/CPC_to_CPS.pl -rwxr-xr-x root/root 2624 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/CPS_to_RENAST.pl -rwxr-xr-x root/root 1752 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/CM_plotter.pl -rwxr-xr-x root/root 25941 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl -rwxr-xr-x root/root 6570 2010-12-12 13:36 ./usr/lib/ChimeraSlayer/ChimeraParentSelector/run_chimeraParentSelector.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/chimeraslayer/ -rw-r--r-- root/root 1495 2010-12-12 13:36 ./usr/share/doc/chimeraslayer/LICENSE -rw-r--r-- root/root 601 2011-11-02 17:25 ./usr/share/doc/chimeraslayer/changelog.Debian.gz -rw-r--r-- root/root 1948 2011-04-14 11:39 ./usr/share/doc/chimeraslayer/copyright lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/chimeraslayer -> ../lib/ChimeraSlayer/ChimeraSlayer.pl chroot-autobuild/build/buildd/nast-ier_20101212-1ubuntu5_i386.deb: drwxr-xr-x root/root 0 2012-08-16 03:40 ./ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/bin/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/NAST-iEr/ -rwxr-xr-x root/root 4782 2012-08-16 03:40 ./usr/lib/NAST-iEr/run_NAST-iEr.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/NAST-iEr/iterative_refinement/ -rwxr-xr-x root/root 619 2010-12-12 13:36 ./usr/lib/NAST-iEr/iterative_refinement/compare_DBs.pl -rwxr-xr-x root/root 415 2010-12-12 13:36 ./usr/lib/NAST-iEr/iterative_refinement/quant_differences.pl -rwxr-xr-x root/root 628 2010-12-12 13:36 ./usr/lib/NAST-iEr/iterative_refinement/iteratively_realign_db_selfsearch.pl -rwxr-xr-x root/root 13704 2012-08-16 03:40 ./usr/lib/NAST-iEr/NAST-iEr -rw-r--r-- root/root 2059 2010-12-12 13:36 ./usr/lib/NAST-iEr/README drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/NAST-iEr/PerlLib/ -rw-r--r-- root/root 2980 2012-08-16 03:40 ./usr/lib/NAST-iEr/PerlLib/Fasta_reader.pm -rw-r--r-- root/root 10298 2010-12-12 13:36 ./usr/lib/NAST-iEr/PerlLib/Nuc_translator.pm -rw-r--r-- root/root 2453 2010-12-12 13:36 ./usr/lib/NAST-iEr/PerlLib/CdbTools.pm drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/NAST-iEr/util/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/NAST-iEr/util/masks/ -rw-r--r-- root/root 7821 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/masks/lanemask.NAST -rw-r--r-- root/root 7735 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/masks/eco.prokMSA -rwxr-xr-x root/root 2752 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/show_malign_no_gap.pl -rwxr-xr-x root/root 1183 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/mfasta_remove_allGapCols.pl -rwxr-xr-x root/root 2940 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/show_malign_no_gap_no_identical_cols.pl -rwxr-xr-x root/root 1429 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/apply_NAST_MASK.pl -rwxr-xr-x root/root 507 2010-12-12 13:36 ./usr/lib/NAST-iEr/util/mfasta_remove_gaps.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/nast-ier/ -rw-r--r-- root/root 1482 2010-12-12 13:36 ./usr/share/doc/nast-ier/LICENSE -rw-r--r-- root/root 601 2011-11-02 17:25 ./usr/share/doc/nast-ier/changelog.Debian.gz -rw-r--r-- root/root 1948 2011-04-14 11:39 ./usr/share/doc/nast-ier/copyright lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/nast-ier -> ../lib/NAST-iEr/run_NAST-iEr.pl chroot-autobuild/build/buildd/wigeon_20101212-1ubuntu5_all.deb: drwxr-xr-x root/root 0 2012-08-16 03:40 ./ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/bin/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/WigeoN/ -rwxr-xr-x root/root 4469 2012-08-16 03:40 ./usr/lib/WigeoN/run_WigeoN.pl -rwxr-xr-x root/root 8525 2012-08-16 03:40 ./usr/lib/WigeoN/run_CM_to_WigeoN.pl -rw-r--r-- root/root 1997 2010-12-12 13:36 ./usr/lib/WigeoN/README drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/WigeoN/PerlLib/ -rw-r--r-- root/root 2980 2012-08-16 03:40 ./usr/lib/WigeoN/PerlLib/Fasta_reader.pm -rw-r--r-- root/root 3548 2010-12-12 13:36 ./usr/lib/WigeoN/PerlLib/BHStats.pm -rw-r--r-- root/root 2453 2010-12-12 13:36 ./usr/lib/WigeoN/PerlLib/CdbTools.pm drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/WigeoN/util/ -rwxr-xr-x root/root 824 2010-12-12 13:36 ./usr/lib/WigeoN/util/smooth.pl -rwxr-xr-x root/root 789 2010-12-12 13:36 ./usr/lib/WigeoN/util/compute_quant_bins.pl -rwxr-xr-x root/root 1517 2010-12-12 13:36 ./usr/lib/WigeoN/util/eco_nast_freq.pl -rw-r--r-- root/root 7735 2010-12-12 13:36 ./usr/lib/WigeoN/util/eco.prokMSA -rwxr-xr-x root/root 1240 2010-12-12 13:36 ./usr/lib/WigeoN/util/all_vs_all_WigeoN.pl -rwxr-xr-x root/root 454 2010-12-12 13:36 ./usr/lib/WigeoN/util/apply_eco_Mask.pl -rwxr-xr-x root/root 1179 2010-12-12 13:36 ./usr/lib/WigeoN/util/makeConservationProfile.pl -rwxr-xr-x root/root 16959 2012-08-16 03:40 ./usr/lib/WigeoN/WigeoN.pl drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/lib/WigeoN/data/ -rw-r--r-- root/root 7735 2010-12-12 13:36 ./usr/lib/WigeoN/data/eco.prokMSA -rw-r--r-- root/root 1416 2010-12-12 13:36 ./usr/lib/WigeoN/data/DE_quantiles.dat -rw-r--r-- root/root 74361 2010-12-12 13:36 ./usr/lib/WigeoN/data/rRNA16S.gold.NAST_ALIGNED.fasta.cons drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/wigeon/ -rw-r--r-- root/root 1480 2010-12-12 13:36 ./usr/share/doc/wigeon/LICENSE -rw-r--r-- root/root 601 2011-11-02 17:25 ./usr/share/doc/wigeon/changelog.Debian.gz -rw-r--r-- root/root 1948 2011-04-14 11:39 ./usr/share/doc/wigeon/copyright lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/cm_to_wigeon -> ../lib/WigeoN/run_CM_to_WigeoN.pl lrwxrwxrwx root/root 0 2012-08-16 03:40 ./usr/bin/wigeon -> ../lib/WigeoN/run_WigeoN.pl chroot-autobuild/build/buildd/microbiomeutil-data_20101212-1ubuntu5_all.deb: drwxr-xr-x root/root 0 2012-08-16 03:40 ./ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/bin/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/microbiomeutil-data/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/microbiomeutil-data/RESOURCES/ -rw-r--r-- root/root 18782 2010-12-12 13:36 ./usr/share/microbiomeutil-data/RESOURCES/genus_counts -rwxr-xr-x root/root 624 2012-08-16 03:40 ./usr/share/microbiomeutil-data/RESOURCES/genus_counter.pl -rw-r--r-- root/root 40535241 2010-12-12 13:36 ./usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta -rw-r--r-- root/root 8730743 2010-12-12 13:36 ./usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.fasta -rw-r--r-- root/root 935 2010-12-12 13:36 ./usr/share/microbiomeutil-data/RESOURCES/README drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-08-16 03:40 ./usr/share/doc/microbiomeutil-data/ -rw-r--r-- root/root 601 2011-11-02 17:25 ./usr/share/doc/microbiomeutil-data/changelog.Debian.gz -rw-r--r-- root/root 1948 2011-04-14 11:39 ./usr/share/doc/microbiomeutil-data/copyright microbiomeutil_20101212-1ubuntu5_i386.changes: Format: 1.8 Date: Wed, 02 Nov 2011 17:25:31 +0000 Source: microbiomeutil Binary: microbiomeutil chimeraslayer nast-ier wigeon microbiomeutil-data Architecture: all i386 Version: 20101212-1ubuntu5 Distribution: precise Urgency: low Maintainer: Ubuntu Build Daemon Changed-By: Tim Booth Description: chimeraslayer - Chimera detection microbiomeutil - Microbiome Analysis Utilities microbiomeutil-data - Reference 16S sequences and NAST-alignments used by microbiomeuti nast-ier - NAST-based alignment tool wigeon - A reimplementation of the Pintail 16S anomaly detection utility Changes: microbiomeutil (20101212-1ubuntu5) lucid; urgency=low . * Another patch needed to Perl code due to inappropriate use of FindBin * Move to /usr/lib rather than /usr/share as per Lintian warnings. Checksums-Sha1: 35613d259a2b82dcf0ed2bb1a82d8ebe28da6aa3 228140 microbiomeutil_20101212-1ubuntu5_all.deb 0c142731719aa2e60bd77e71d2f891ed864cf53f 35630 chimeraslayer_20101212-1ubuntu5_all.deb bfc6b2069e4535d7401594089c96854b7a9b9102 21072 nast-ier_20101212-1ubuntu5_i386.deb 92d7f37a6ce918351366bc690c97008d496979b3 43014 wigeon_20101212-1ubuntu5_all.deb fd6da6cd6e1c203421a519ac7037a541ed1e2283 3983078 microbiomeutil-data_20101212-1ubuntu5_all.deb Checksums-Sha256: 447be17c1af5227904840f3c161f99cbfe62d9f408b6e07aa67c6844cda85bb1 228140 microbiomeutil_20101212-1ubuntu5_all.deb 031473de9d08cd8ac329d5bf46c4003b97a106300f55d8cfc6feae09cb46e475 35630 chimeraslayer_20101212-1ubuntu5_all.deb 52566ea7ca78839853aac52ad2c7ed1dde49cc6c58f86883c2f4e929fb814a17 21072 nast-ier_20101212-1ubuntu5_i386.deb 5772ce9029eaac6312b4c31273bb2107cf8cd8558a4a922bc526a585574d78fb 43014 wigeon_20101212-1ubuntu5_all.deb 06b25d830bc5c4cffceedc81a98f50b40cb7e371b59ecba7c459b276ae69d412 3983078 microbiomeutil-data_20101212-1ubuntu5_all.deb Files: 879fc58274ec798444987af2aaf59284 228140 science extra microbiomeutil_20101212-1ubuntu5_all.deb 62f1cad655b6a4fd68fe6bded2234343 35630 science extra chimeraslayer_20101212-1ubuntu5_all.deb 85b033333c34a800c7b61029127b4f07 21072 science extra nast-ier_20101212-1ubuntu5_i386.deb d965b44b20d14bf1bbe6b33f3e7fb4d1 43014 science extra wigeon_20101212-1ubuntu5_all.deb 8876da3d9f949644f0e6efbe4874def7 3983078 science extra microbiomeutil-data_20101212-1ubuntu5_all.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20120816-0340 Build needed 00:00:38, 112756k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', 'a8c8f1ec292e9668f430e10670b732942b4df396'] Scanning for processes to kill in build /home/buildd/build-a8c8f1ec292e9668f430e10670b732942b4df396/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'a8c8f1ec292e9668f430e10670b732942b4df396'] Unmounting chroot for build a8c8f1ec292e9668f430e10670b732942b4df396... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'a8c8f1ec292e9668f430e10670b732942b4df396'] Removing build a8c8f1ec292e9668f430e10670b732942b4df396