RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: 3.2.0-35-generic #55-Ubuntu SMP Wed Dec 5 17:42:16 UTC 2012 x86_64 Buildd toolchain package versions: launchpad-buildd_114-0~53~0.IS.08.04 python-lpbuildd_114-0~53~0.IS.08.04 bzr_2.5.1-0ubuntu2. Syncing the system clock with the buildd NTP service... 5 Feb 23:06:52 ntpdate[10862]: adjust time server 10.211.37.1 offset -0.000152 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '45f36d8d165519b80bfc428acdde663514db0089', '/home/buildd/filecache-default/274038151e938b8314e43bcde187ecbcfa73c1c0'] Unpacking chroot for build 45f36d8d165519b80bfc428acdde663514db0089 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '45f36d8d165519b80bfc428acdde663514db0089'] Mounting chroot for build 45f36d8d165519b80bfc428acdde663514db0089 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '45f36d8d165519b80bfc428acdde663514db0089', 'deb http://ftpmaster.internal/ubuntu raring main universe', 'deb http://ftpmaster.internal/ubuntu raring-security main universe', 'deb http://ftpmaster.internal/ubuntu raring-updates main universe', 'deb http://ftpmaster.internal/ubuntu raring-proposed main universe'] Overriding sources.list in build-45f36d8d165519b80bfc428acdde663514db0089 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '45f36d8d165519b80bfc428acdde663514db0089', 'i386'] Updating debian chroot for build 45f36d8d165519b80bfc428acdde663514db0089 Ign http://ftpmaster.internal raring InRelease Ign http://archive-team.internal raring InRelease Ign http://ftpmaster.internal raring-security InRelease Ign http://archive-team.internal raring Release.gpg Ign http://ftpmaster.internal raring-updates InRelease Get:1 http://archive-team.internal raring Release [723 B] Ign http://ftpmaster.internal raring-proposed InRelease Get:2 http://ftpmaster.internal raring Release.gpg [933 B] Get:3 http://ftpmaster.internal raring-security Release.gpg [933 B] Get:4 http://ftpmaster.internal raring-updates Release.gpg [933 B] Get:5 http://ftpmaster.internal raring-proposed Release.gpg [933 B] Get:6 http://ftpmaster.internal raring Release [40.8 kB] Get:7 http://archive-team.internal raring/main i386 Packages Ign http://archive-team.internal raring/main Translation-en Get:8 http://ftpmaster.internal raring-security Release [49.6 kB] Get:9 http://ftpmaster.internal raring-updates Release [49.6 kB] Get:10 http://ftpmaster.internal raring-proposed Release [40.8 kB] Get:11 http://ftpmaster.internal raring/main i386 Packages [1162 kB] Get:12 http://ftpmaster.internal raring/universe i386 Packages [5396 kB] Get:13 http://ftpmaster.internal raring/main Translation-en [671 kB] Get:14 http://ftpmaster.internal raring/universe Translation-en [3724 kB] Get:15 http://ftpmaster.internal raring-security/main i386 Packages [14 B] Get:16 http://ftpmaster.internal raring-security/universe i386 Packages [14 B] Get:17 http://ftpmaster.internal raring-security/main Translation-en [14 B] Get:18 http://ftpmaster.internal raring-security/universe Translation-en [14 B] Get:19 http://ftpmaster.internal raring-updates/main i386 Packages [14 B] Get:20 http://ftpmaster.internal raring-updates/universe i386 Packages [14 B] Get:21 http://ftpmaster.internal raring-updates/main Translation-en [14 B] Get:22 http://ftpmaster.internal raring-updates/universe Translation-en [14 B] Get:23 http://ftpmaster.internal raring-proposed/main i386 Packages [5872 B] Get:24 http://ftpmaster.internal raring-proposed/universe i386 Packages [156 kB] Get:25 http://ftpmaster.internal raring-proposed/main Translation-en [2887 B] Get:26 http://ftpmaster.internal raring-proposed/universe Translation-en [73.8 kB] Fetched 11.4 MB in 6s (1758 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: bsdutils libblkid1 libmount1 libuuid1 mount util-linux 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 989 kB of archives. After this operation, 35.8 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! mount util-linux bsdutils libuuid1 libblkid1 libmount1 Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ raring/main mount i386 2.20.1-5.1ubuntu8 [166 kB] Get:2 http://ftpmaster.internal/ubuntu/ raring/main util-linux i386 2.20.1-5.1ubuntu8 [614 kB] Get:3 http://ftpmaster.internal/ubuntu/ raring/main bsdutils i386 1:2.20.1-5.1ubuntu8 [42.5 kB] Get:4 http://ftpmaster.internal/ubuntu/ raring/main libuuid1 i386 2.20.1-5.1ubuntu8 [14.5 kB] Get:5 http://ftpmaster.internal/ubuntu/ raring/main libblkid1 i386 2.20.1-5.1ubuntu8 [80.2 kB] Get:6 http://ftpmaster.internal/ubuntu/ raring/main libmount1 i386 2.20.1-5.1ubuntu8 [72.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 989 kB in 0s (10.4 MB/s) (Reading database ... 12071 files and directories currently installed.) Preparing to replace mount 2.20.1-5.1ubuntu7 (using .../mount_2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement mount ... Setting up mount (2.20.1-5.1ubuntu8) ... (Reading database ... 12071 files and directories currently installed.) Preparing to replace util-linux 2.20.1-5.1ubuntu7 (using .../util-linux_2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement util-linux ... Setting up util-linux (2.20.1-5.1ubuntu8) ... (Reading database ... 12073 files and directories currently installed.) Preparing to replace bsdutils 1:2.20.1-5.1ubuntu7 (using .../bsdutils_1%3a2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (1:2.20.1-5.1ubuntu8) ... (Reading database ... 12073 files and directories currently installed.) Preparing to replace libuuid1:i386 2.20.1-5.1ubuntu7 (using .../libuuid1_2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement libuuid1:i386 ... Setting up libuuid1:i386 (2.20.1-5.1ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12073 files and directories currently installed.) Preparing to replace libblkid1:i386 2.20.1-5.1ubuntu7 (using .../libblkid1_2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement libblkid1:i386 ... Setting up libblkid1:i386 (2.20.1-5.1ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12073 files and directories currently installed.) Preparing to replace libmount1:i386 2.20.1-5.1ubuntu7 (using .../libmount1_2.20.1-5.1ubuntu8_i386.deb) ... Unpacking replacement libmount1:i386 ... Setting up libmount1:i386 (2.20.1-5.1ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '45f36d8d165519b80bfc428acdde663514db0089', 'i386', 'raring-proposed', '--nolog', '--batch', '--archive=ubuntu', '--dist=raring-proposed', '-A', '--purpose=PRIMARY', '--architecture=i386', '--comp=universe', 'primer3_2.3.5-1.dsc'] Initiating build 45f36d8d165519b80bfc428acdde663514db0089 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.2.0-35-generic #55-Ubuntu SMP Wed Dec 5 17:42:16 UTC 2012 i686 Automatic build of primer3_2.3.5-1 on panlong by sbuild/i386 1.170.5 Build started at 20130205-2307 ****************************************************************************** primer3_2.3.5-1.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9), cdbs Checking for already installed source dependencies... debhelper: missing cdbs: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper cdbs Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autoconf automake autotools-dev bsdmainutils ca-certificates dh-apparmor dh-translations file gettext gettext-base groff-base html2text intltool intltool-debian libasprintf-dev libasprintf0c2 libcroco3 libencode-locale-perl libexpat1 libfile-listing-perl libgettextpo-dev libgettextpo0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libio-socket-ssl-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libnet-http-perl libnet-ssleay-perl libpipeline1 libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libxml-parser-perl libxml2 m4 man-db mime-support netbase openssl po-debconf python python-minimal python-scour python2.7 python2.7-minimal Suggested packages: autoconf2.13 autoconf-archive gnu-standards autoconf-doc libtool wamerican wordlist whois vacation devscripts dh-make gettext-doc groff libdata-dump-perl libcrypt-ssleay-perl libauthen-ntlm-perl less www-browser libmail-box-perl python-doc python-tk python-rsvg python-cairo python2.7-doc binfmt-support Recommended packages: curl wget lynx-cur libhtml-format-perl libio-socket-inet6-perl libio-socket-ip-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autotools-dev bsdmainutils ca-certificates cdbs debhelper dh-apparmor dh-translations file gettext gettext-base groff-base html2text intltool intltool-debian libasprintf-dev libasprintf0c2 libcroco3 libencode-locale-perl libexpat1 libfile-listing-perl libgettextpo-dev libgettextpo0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libio-socket-ssl-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libnet-http-perl libnet-ssleay-perl libpipeline1 libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libxml-parser-perl libxml2 m4 man-db mime-support netbase openssl po-debconf python python-minimal python-scour python2.7 python2.7-minimal 0 upgraded, 58 newly installed, 0 to remove and 0 not upgraded. Need to get 13.6 MB of archives. After this operation, 43.8 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libexpat1 libmagic1 libasprintf0c2 libpipeline1 groff-base bsdmainutils man-db libxml2 libcroco3 libunistring0 libgettextpo0 file mime-support netbase openssl ca-certificates gettext-base libsigsegv2 m4 autoconf autotools-dev automake html2text libasprintf-dev libgettextpo-dev gettext intltool-debian po-debconf dh-apparmor debhelper liburi-perl libencode-locale-perl libhttp-date-perl libfile-listing-perl libhtml-tagset-perl libhtml-parser-perl libhtml-tree-perl liblwp-mediatypes-perl libhttp-message-perl libhttp-cookies-perl libhttp-negotiate-perl libnet-ssleay-perl libio-socket-ssl-perl libnet-http-perl liblwp-protocol-https-perl libwww-robotrules-perl libwww-perl libxml-parser-perl intltool dh-translations libpython2.7-minimal python2.7-minimal libpython2.7-stdlib python2.7 python-minimal python python-scour cdbs Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ raring/main libexpat1 i386 2.1.0-2 [129 kB] Get:2 http://ftpmaster.internal/ubuntu/ raring/main libmagic1 i386 5.11-2ubuntu1 [173 kB] Get:3 http://ftpmaster.internal/ubuntu/ raring/main libasprintf0c2 i386 0.18.1.1-10ubuntu1 [6950 B] Get:4 http://ftpmaster.internal/ubuntu/ raring/main libpipeline1 i386 1.2.2-1 [26.3 kB] Get:5 http://ftpmaster.internal/ubuntu/ raring/main groff-base i386 1.22.1-2 [706 kB] Get:6 http://ftpmaster.internal/ubuntu/ raring/main bsdmainutils i386 9.0.4ubuntu1 [198 kB] Get:7 http://ftpmaster.internal/ubuntu/ raring/main man-db i386 2.6.3-3 [633 kB] Get:8 http://ftpmaster.internal/ubuntu/ raring/main libxml2 i386 2.9.0+dfsg1-4ubuntu1 [679 kB] Get:9 http://ftpmaster.internal/ubuntu/ raring/main libcroco3 i386 0.6.8-1 [81.7 kB] Get:10 http://ftpmaster.internal/ubuntu/ raring/main libunistring0 i386 0.9.3-5build1 [430 kB] Get:11 http://ftpmaster.internal/ubuntu/ raring/main libgettextpo0 i386 0.18.1.1-10ubuntu1 [120 kB] Get:12 http://ftpmaster.internal/ubuntu/ raring/main file i386 5.11-2ubuntu1 [18.1 kB] Get:13 http://ftpmaster.internal/ubuntu/ raring/main mime-support all 3.52-2ubuntu1 [30.5 kB] Get:14 http://ftpmaster.internal/ubuntu/ raring/main netbase all 5.0ubuntu1 [13.8 kB] Get:15 http://ftpmaster.internal/ubuntu/ raring/main openssl i386 1.0.1c-4ubuntu2 [519 kB] Get:16 http://ftpmaster.internal/ubuntu/ raring/main ca-certificates all 20130119 [184 kB] Get:17 http://ftpmaster.internal/ubuntu/ raring/main gettext-base i386 0.18.1.1-10ubuntu1 [56.0 kB] Get:18 http://ftpmaster.internal/ubuntu/ raring/main libsigsegv2 i386 2.9-4ubuntu3 [14.6 kB] Get:19 http://ftpmaster.internal/ubuntu/ raring/main m4 i386 1.4.16-4ubuntu1 [199 kB] Get:20 http://ftpmaster.internal/ubuntu/ raring/main autoconf all 2.69-1ubuntu1 [568 kB] Get:21 http://ftpmaster.internal/ubuntu/ raring/main autotools-dev all 20120608.1 [42.9 kB] Get:22 http://ftpmaster.internal/ubuntu/ raring/main automake all 1:1.11.6-1ubuntu1 [578 kB] Get:23 http://ftpmaster.internal/ubuntu/ raring/main html2text i386 1.3.2a-15ubuntu1 [91.4 kB] Get:24 http://ftpmaster.internal/ubuntu/ raring/main libasprintf-dev i386 0.18.1.1-10ubuntu1 [4380 B] Get:25 http://ftpmaster.internal/ubuntu/ raring/main libgettextpo-dev i386 0.18.1.1-10ubuntu1 [149 kB] Get:26 http://ftpmaster.internal/ubuntu/ raring/main gettext i386 0.18.1.1-10ubuntu1 [991 kB] Get:27 http://ftpmaster.internal/ubuntu/ raring/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:28 http://ftpmaster.internal/ubuntu/ raring/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:29 http://ftpmaster.internal/ubuntu/ raring/main dh-apparmor all 2.8.0-0ubuntu10 [9008 B] Get:30 http://ftpmaster.internal/ubuntu/ raring/main debhelper all 9.20120909ubuntu1 [631 kB] Get:31 http://ftpmaster.internal/ubuntu/ raring/main liburi-perl all 1.60-1 [89.6 kB] Get:32 http://ftpmaster.internal/ubuntu/ raring/main libencode-locale-perl all 1.03-1 [12.4 kB] Get:33 http://ftpmaster.internal/ubuntu/ raring/main libhttp-date-perl all 6.02-1 [10.4 kB] Get:34 http://ftpmaster.internal/ubuntu/ raring/main libfile-listing-perl all 6.04-1 [9774 B] Get:35 http://ftpmaster.internal/ubuntu/ raring/main libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:36 http://ftpmaster.internal/ubuntu/ raring/main libhtml-parser-perl i386 3.69-2 [99.4 kB] Get:37 http://ftpmaster.internal/ubuntu/ raring/main libhtml-tree-perl all 5.02-1 [213 kB] Get:38 http://ftpmaster.internal/ubuntu/ raring/main liblwp-mediatypes-perl all 6.02-1 [21.7 kB] Get:39 http://ftpmaster.internal/ubuntu/ raring/main libhttp-message-perl all 6.03-1 [77.6 kB] Get:40 http://ftpmaster.internal/ubuntu/ raring/main libhttp-cookies-perl all 6.00-2 [23.3 kB] Get:41 http://ftpmaster.internal/ubuntu/ raring/main libhttp-negotiate-perl all 6.00-2 [13.4 kB] Get:42 http://ftpmaster.internal/ubuntu/ raring/main libnet-ssleay-perl i386 1.48-1 [313 kB] Get:43 http://ftpmaster.internal/ubuntu/ raring/main libio-socket-ssl-perl all 1.76-2ubuntu1 [51.4 kB] Get:44 http://ftpmaster.internal/ubuntu/ raring/main libnet-http-perl all 6.03-2 [24.0 kB] Get:45 http://ftpmaster.internal/ubuntu/ raring/main liblwp-protocol-https-perl all 6.03-1 [7178 B] Get:46 http://ftpmaster.internal/ubuntu/ raring/main libwww-robotrules-perl all 6.01-1 [14.1 kB] Get:47 http://ftpmaster.internal/ubuntu/ raring/main libwww-perl all 6.04-1 [156 kB] Get:48 http://ftpmaster.internal/ubuntu/ raring/main libxml-parser-perl i386 2.41-1build2 [278 kB] Get:49 http://ftpmaster.internal/ubuntu/ raring/main intltool all 0.50.2-2 [52.0 kB] Get:50 http://ftpmaster.internal/ubuntu/ raring/main dh-translations all 117 [21.7 kB] Get:51 http://ftpmaster.internal/ubuntu/ raring/main libpython2.7-minimal i386 2.7.3-15ubuntu2 [508 kB] Get:52 http://ftpmaster.internal/ubuntu/ raring/main python2.7-minimal i386 2.7.3-15ubuntu2 [1129 kB] Get:53 http://ftpmaster.internal/ubuntu/ raring/main libpython2.7-stdlib i386 2.7.3-15ubuntu2 [2327 kB] Get:54 http://ftpmaster.internal/ubuntu/ raring/main python2.7 i386 2.7.3-15ubuntu2 [291 kB] Get:55 http://ftpmaster.internal/ubuntu/ raring/main python-minimal i386 2.7.3-10ubuntu5 [31.4 kB] Get:56 http://ftpmaster.internal/ubuntu/ raring/main python i386 2.7.3-10ubuntu5 [169 kB] Get:57 http://ftpmaster.internal/ubuntu/ raring/main python-scour all 0.26-3 [46.5 kB] Get:58 http://ftpmaster.internal/ubuntu/ raring/main cdbs all 0.4.120ubuntu1 [48.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.6 MB in 1s (7468 kB/s) Selecting previously unselected package libexpat1:i386. (Reading database ... 12073 files and directories currently installed.) Unpacking libexpat1:i386 (from .../libexpat1_2.1.0-2_i386.deb) ... Selecting previously unselected package libmagic1:i386. Unpacking libmagic1:i386 (from .../libmagic1_5.11-2ubuntu1_i386.deb) ... Selecting previously unselected package libasprintf0c2:i386. Unpacking libasprintf0c2:i386 (from .../libasprintf0c2_0.18.1.1-10ubuntu1_i386.deb) ... Selecting previously unselected package libpipeline1:i386. Unpacking libpipeline1:i386 (from .../libpipeline1_1.2.2-1_i386.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.22.1-2_i386.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.4ubuntu1_i386.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.3-3_i386.deb) ... Selecting previously unselected package libxml2:i386. Unpacking libxml2:i386 (from .../libxml2_2.9.0+dfsg1-4ubuntu1_i386.deb) ... Selecting previously unselected package libcroco3:i386. Unpacking libcroco3:i386 (from .../libcroco3_0.6.8-1_i386.deb) ... Selecting previously unselected package libunistring0:i386. Unpacking libunistring0:i386 (from .../libunistring0_0.9.3-5build1_i386.deb) ... Selecting previously unselected package libgettextpo0:i386. Unpacking libgettextpo0:i386 (from .../libgettextpo0_0.18.1.1-10ubuntu1_i386.deb) ... Selecting previously unselected package file. Unpacking file (from .../file_5.11-2ubuntu1_i386.deb) ... Selecting previously unselected package mime-support. Unpacking mime-support (from .../mime-support_3.52-2ubuntu1_all.deb) ... Selecting previously unselected package netbase. Unpacking netbase (from .../netbase_5.0ubuntu1_all.deb) ... Selecting previously unselected package openssl. Unpacking openssl (from .../openssl_1.0.1c-4ubuntu2_i386.deb) ... Selecting previously unselected package ca-certificates. Unpacking ca-certificates (from .../ca-certificates_20130119_all.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-10ubuntu1_i386.deb) ... Selecting previously unselected package libsigsegv2. Unpacking libsigsegv2 (from .../libsigsegv2_2.9-4ubuntu3_i386.deb) ... Selecting previously unselected package m4. Unpacking m4 (from .../m4_1.4.16-4ubuntu1_i386.deb) ... Selecting previously unselected package autoconf. Unpacking autoconf (from .../autoconf_2.69-1ubuntu1_all.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20120608.1_all.deb) ... Selecting previously unselected package automake. Unpacking automake (from .../automake_1%3a1.11.6-1ubuntu1_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15ubuntu1_i386.deb) ... Selecting previously unselected package libasprintf-dev:i386. Unpacking libasprintf-dev:i386 (from .../libasprintf-dev_0.18.1.1-10ubuntu1_i386.deb) ... Selecting previously unselected package libgettextpo-dev:i386. Unpacking libgettextpo-dev:i386 (from .../libgettextpo-dev_0.18.1.1-10ubuntu1_i386.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-10ubuntu1_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_2.8.0-0ubuntu10_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120909ubuntu1_all.deb) ... Selecting previously unselected package liburi-perl. Unpacking liburi-perl (from .../liburi-perl_1.60-1_all.deb) ... Selecting previously unselected package libencode-locale-perl. Unpacking libencode-locale-perl (from .../libencode-locale-perl_1.03-1_all.deb) ... Selecting previously unselected package libhttp-date-perl. Unpacking libhttp-date-perl (from .../libhttp-date-perl_6.02-1_all.deb) ... Selecting previously unselected package libfile-listing-perl. Unpacking libfile-listing-perl (from .../libfile-listing-perl_6.04-1_all.deb) ... Selecting previously unselected package libhtml-tagset-perl. Unpacking libhtml-tagset-perl (from .../libhtml-tagset-perl_3.20-2_all.deb) ... Selecting previously unselected package libhtml-parser-perl. Unpacking libhtml-parser-perl (from .../libhtml-parser-perl_3.69-2_i386.deb) ... Selecting previously unselected package libhtml-tree-perl. Unpacking libhtml-tree-perl (from .../libhtml-tree-perl_5.02-1_all.deb) ... Selecting previously unselected package liblwp-mediatypes-perl. Unpacking liblwp-mediatypes-perl (from .../liblwp-mediatypes-perl_6.02-1_all.deb) ... Selecting previously unselected package libhttp-message-perl. Unpacking libhttp-message-perl (from .../libhttp-message-perl_6.03-1_all.deb) ... Selecting previously unselected package libhttp-cookies-perl. Unpacking libhttp-cookies-perl (from .../libhttp-cookies-perl_6.00-2_all.deb) ... Selecting previously unselected package libhttp-negotiate-perl. Unpacking libhttp-negotiate-perl (from .../libhttp-negotiate-perl_6.00-2_all.deb) ... Selecting previously unselected package libnet-ssleay-perl. Unpacking libnet-ssleay-perl (from .../libnet-ssleay-perl_1.48-1_i386.deb) ... Selecting previously unselected package libio-socket-ssl-perl. Unpacking libio-socket-ssl-perl (from .../libio-socket-ssl-perl_1.76-2ubuntu1_all.deb) ... Selecting previously unselected package libnet-http-perl. Unpacking libnet-http-perl (from .../libnet-http-perl_6.03-2_all.deb) ... Selecting previously unselected package liblwp-protocol-https-perl. Unpacking liblwp-protocol-https-perl (from .../liblwp-protocol-https-perl_6.03-1_all.deb) ... Selecting previously unselected package libwww-robotrules-perl. Unpacking libwww-robotrules-perl (from .../libwww-robotrules-perl_6.01-1_all.deb) ... Selecting previously unselected package libwww-perl. Unpacking libwww-perl (from .../libwww-perl_6.04-1_all.deb) ... Selecting previously unselected package libxml-parser-perl. Unpacking libxml-parser-perl (from .../libxml-parser-perl_2.41-1build2_i386.deb) ... Selecting previously unselected package intltool. Unpacking intltool (from .../intltool_0.50.2-2_all.deb) ... Selecting previously unselected package dh-translations. Unpacking dh-translations (from .../dh-translations_117_all.deb) ... Selecting previously unselected package libpython2.7-minimal:i386. Unpacking libpython2.7-minimal:i386 (from .../libpython2.7-minimal_2.7.3-15ubuntu2_i386.deb) ... Selecting previously unselected package python2.7-minimal. Unpacking python2.7-minimal (from .../python2.7-minimal_2.7.3-15ubuntu2_i386.deb) ... Selecting previously unselected package libpython2.7-stdlib:i386. Unpacking libpython2.7-stdlib:i386 (from .../libpython2.7-stdlib_2.7.3-15ubuntu2_i386.deb) ... Selecting previously unselected package python2.7. Unpacking python2.7 (from .../python2.7_2.7.3-15ubuntu2_i386.deb) ... Selecting previously unselected package python-minimal. Unpacking python-minimal (from .../python-minimal_2.7.3-10ubuntu5_i386.deb) ... Selecting previously unselected package python. Unpacking python (from .../python_2.7.3-10ubuntu5_i386.deb) ... Selecting previously unselected package python-scour. Unpacking python-scour (from .../python-scour_0.26-3_all.deb) ... Selecting previously unselected package cdbs. Unpacking cdbs (from .../cdbs_0.4.120ubuntu1_all.deb) ... Setting up libexpat1:i386 (2.1.0-2) ... Setting up libmagic1:i386 (5.11-2ubuntu1) ... Setting up libasprintf0c2:i386 (0.18.1.1-10ubuntu1) ... Setting up libpipeline1:i386 (1.2.2-1) ... Setting up groff-base (1.22.1-2) ... Setting up bsdmainutils (9.0.4ubuntu1) ... 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 (2.6.3-3) ... Building database of manual pages ... Setting up libxml2:i386 (2.9.0+dfsg1-4ubuntu1) ... Setting up libcroco3:i386 (0.6.8-1) ... Setting up libunistring0:i386 (0.9.3-5build1) ... Setting up libgettextpo0:i386 (0.18.1.1-10ubuntu1) ... Setting up file (5.11-2ubuntu1) ... Setting up mime-support (3.52-2ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up netbase (5.0ubuntu1) ... Setting up openssl (1.0.1c-4ubuntu2) ... Setting up ca-certificates (20130119) ... Setting up gettext-base (0.18.1.1-10ubuntu1) ... Setting up libsigsegv2 (2.9-4ubuntu3) ... Setting up m4 (1.4.16-4ubuntu1) ... Setting up autoconf (2.69-1ubuntu1) ... Setting up autotools-dev (20120608.1) ... Setting up automake (1:1.11.6-1ubuntu1) ... update-alternatives: using /usr/bin/automake-1.11 to provide /usr/bin/automake (automake) in auto mode Setting up html2text (1.3.2a-15ubuntu1) ... Setting up libasprintf-dev:i386 (0.18.1.1-10ubuntu1) ... Setting up libgettextpo-dev:i386 (0.18.1.1-10ubuntu1) ... Setting up gettext (0.18.1.1-10ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-apparmor (2.8.0-0ubuntu10) ... Setting up debhelper (9.20120909ubuntu1) ... Setting up liburi-perl (1.60-1) ... Setting up libencode-locale-perl (1.03-1) ... Setting up libhttp-date-perl (6.02-1) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up libhtml-parser-perl (3.69-2) ... Setting up libhtml-tree-perl (5.02-1) ... Setting up liblwp-mediatypes-perl (6.02-1) ... Setting up libhttp-message-perl (6.03-1) ... Setting up libhttp-cookies-perl (6.00-2) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up libnet-ssleay-perl (1.48-1) ... Setting up libio-socket-ssl-perl (1.76-2ubuntu1) ... Setting up libnet-http-perl (6.03-2) ... Setting up libwww-robotrules-perl (6.01-1) ... Setting up libpython2.7-minimal:i386 (2.7.3-15ubuntu2) ... Setting up python2.7-minimal (2.7.3-15ubuntu2) ... Linking and byte-compiling packages for runtime python2.7... Setting up libpython2.7-stdlib:i386 (2.7.3-15ubuntu2) ... Setting up python2.7 (2.7.3-15ubuntu2) ... Setting up python-minimal (2.7.3-10ubuntu5) ... Setting up python (2.7.3-10ubuntu5) ... Setting up python-scour (0.26-3) ... Setting up liblwp-protocol-https-perl (6.03-1) ... Setting up libwww-perl (6.04-1) ... Setting up libxml-parser-perl (2.41-1build2) ... Setting up intltool (0.50.2-2) ... Setting up dh-translations (117) ... Setting up cdbs (0.4.120ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Processing triggers for ca-certificates ... Updating certificates in /etc/ssl/certs... 158 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d....done. Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.17-0ubuntu2 make_3.81-8.2ubuntu2 dpkg-dev_1.16.9ubuntu2 gcc-4.7_4.7.2-20ubuntu1 g++-4.7_4.7.2-20ubuntu1 binutils_2.23.1-0ubuntu6 libstdc++6-4.7-dev_4.7.2-20ubuntu1 libstdc++6_4.7.2-20ubuntu1 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Tue Feb 5 12:14:43 2013 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./primer3_2.3.5-1.dsc dpkg-source: info: extracting primer3 in primer3-2.3.5 dpkg-source: info: unpacking primer3_2.3.5.orig.tar.gz dpkg-source: info: unpacking primer3_2.3.5-1.debian.tar.gz dpkg-buildpackage: source package primer3 dpkg-buildpackage: source version 2.3.5-1 dpkg-source --before-build primer3-2.3.5 dpkg-buildpackage: host architecture i386 /usr/bin/fakeroot debian/rules clean test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CPPFLAGS="-D_FORTIFY_SOURCE=2" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" -k -C src clean make[1]: Entering directory `/build/buildd/primer3-2.3.5/src' rm -f *.o primer3_core ntdpal ntthal oligotm long_seq_tm_test *~ libprimer3.a libdpal.a libthal.a liboligotm.a libprimer3.so.1.0.0 libdpal.a.so.1.0.0 libthal.a.so.1.0.0 liboligotm.so.1.2.0 example.for example.rev example.int core ../*~ cd ../test/; make clean make[2]: Entering directory `/build/buildd/primer3-2.3.5/test' echo; echo; echo 'CLEAN UP TEST DIRECTORIES'; echo; echo; CLEAN UP TEST DIRECTORIES rm -rf primer_list_tmp/* rm -rf primer1_list_tmp/* rm -rf primer1_th_list_tmp/* rm -rf th-w-other-tasks_list_tmp/* rm -f primer_global_err/*.tmp primer_global_err/*.tmp2 primer_global_err/*.bak rm -f *.tmp *.bak *.tmp.err *~ rm -f hyb_probe_only.for hyb_probe_only.int rm -f right_only.for right_only.rev left_only.for rm -f pcr_primers_and_io.int pcr_primers_and_io.rev pcr_primers_and_io.for rm -f pcr_primers.rev pcr_primers.for rm -f pick_primer_list_and_file_flag_th_[1-4].for pick_primer_list_and_file_flag_th_[1-4].rev rm -f pick_primer_list_and_file_flag_th_[1-4].int rm -f syntax[0-1][0-9].for syntax[0-1][0-9].int syntax[0-1][0-9].rev rm -f oligotm.*.valg # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg # valgrind output from thal_test.pl --valgrind rm -f oligotm.*.valg.* # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg.* # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg.* # valgrind output from thal_test.pl --valgrind rm -f *.vg */*.vg # valgrind output from p3test{,z}.pl --valgrind rm -f *.vg.core.* # core files from crashed valgrind test rm -f ./core # in case we crashed and left a core file make[2]: Leaving directory `/build/buildd/primer3-2.3.5/test' make[1]: Leaving directory `/build/buildd/primer3-2.3.5/src' rm -f debian/stamp-makefile-check dh_clean /usr/bin/make -C test clean make[1]: Entering directory `/build/buildd/primer3-2.3.5/test' echo; echo; echo 'CLEAN UP TEST DIRECTORIES'; echo; echo; CLEAN UP TEST DIRECTORIES rm -rf primer_list_tmp/* rm -rf primer1_list_tmp/* rm -rf primer1_th_list_tmp/* rm -rf th-w-other-tasks_list_tmp/* rm -f primer_global_err/*.tmp primer_global_err/*.tmp2 primer_global_err/*.bak rm -f *.tmp *.bak *.tmp.err *~ rm -f hyb_probe_only.for hyb_probe_only.int rm -f right_only.for right_only.rev left_only.for rm -f pcr_primers_and_io.int pcr_primers_and_io.rev pcr_primers_and_io.for rm -f pcr_primers.rev pcr_primers.for rm -f pick_primer_list_and_file_flag_th_[1-4].for pick_primer_list_and_file_flag_th_[1-4].rev rm -f pick_primer_list_and_file_flag_th_[1-4].int rm -f syntax[0-1][0-9].for syntax[0-1][0-9].int syntax[0-1][0-9].rev rm -f oligotm.*.valg # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg # valgrind output from thal_test.pl --valgrind rm -f oligotm.*.valg.* # valgrind output from oligotm_test.pl --valgrind rm -f ntdpal.*.valg.* # valgrind output from dpal_test.pl --valgrind rm -f ntthal.*.valg.* # valgrind output from thal_test.pl --valgrind rm -f *.vg */*.vg # valgrind output from p3test{,z}.pl --valgrind rm -f *.vg.core.* # core files from crashed valgrind test rm -f ./core # in case we crashed and left a core file make[1]: Leaving directory `/build/buildd/primer3-2.3.5/test' debian/rules build test -x debian/rules mkdir -p "." /usr/bin/make -C . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CPPFLAGS="-D_FORTIFY_SOURCE=2" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" -C src all make[1]: Entering directory `/build/buildd/primer3-2.3.5/src' g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall primer3_boulder_main.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o format_output.o format_output.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o read_boulder.o read_boulder.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o print_boulder.o print_boulder.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wno-deprecated -o libprimer3.o libprimer3.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o p3_seq_lib.o p3_seq_lib.c ar rv libprimer3.a libprimer3.o p3_seq_lib.o ar: creating libprimer3.a a - libprimer3.o a - p3_seq_lib.o ranlib libprimer3.a g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o dpal_primer.o dpal.c ar rv libdpal.a dpal_primer.o ar: creating libdpal.a a - dpal_primer.o ranlib libdpal.a g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -ffloat-store -o thal_primer.o thal.c ar rv libthal.a thal_primer.o ar: creating libthal.a a - thal_primer.o ranlib libthal.a gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o oligotm.o oligotm.c ar rv liboligotm.a oligotm.o ar: creating liboligotm.a a - oligotm.o ranlib liboligotm.a g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -o primer3_core primer3_boulder_main.o format_output.o read_boulder.o print_boulder.o libprimer3.a libdpal.a libthal.a liboligotm.a -lm g++ -c -g -Wall -D__USE_FIXED_PROTOTYPES__ -o ntdpal_main.o ntdpal_main.c ntdpal_main.c: In function 'int main(int, const char**)': ntdpal_main.c:49:9: warning: variable 'tmp_ret' set but not used [-Wunused-but-set-variable] g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o dpal.o dpal.c g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -o ntdpal ntdpal_main.o dpal.o g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o thal_main.o thal_main.c g++ -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -ffloat-store -o thal.o thal.c g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -o ntthal thal_main.o thal.o -lm g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o oligotm oligotm_main.c liboligotm.a -lm g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -o long_seq_tm_test long_seq_tm_test_main.c oligotm.o -lm make[1]: Leaving directory `/build/buildd/primer3-2.3.5/src' touch debian/stamp-makefile-build /usr/bin/make -C . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CPPFLAGS="-D_FORTIFY_SOURCE=2" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" -C test test make[1]: Entering directory `/build/buildd/primer3-2.3.5/test' cd ../src; make make[2]: Entering directory `/build/buildd/primer3-2.3.5/src' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/primer3-2.3.5/src' perl cmdline_test.pl TESTING command line arguments Test 1... [OK] Test 2... [OK] Test 3... [OK] Test 4... [OK] Test 5... [OK] Passed all tests - [OK] perl oligotm_test.pl TESTING Tm CALCULATIONS Tm tests nr 1-47: OK echo; echo; echo 'TESTING ALIGNMENT CALCS'; echo; perl dpal_test.pl ; TESTING ALIGNMENT CALCS Error handling of too-long sequence...[OK] Default implementations + alignment...[OK] Default implementations + NO alignment 1...[OK] Default implementations + NO alignment 2...[OK] Force _dpal_generic...[OK] Force _dpal_long_nopath_generic 1...[OK] Force _dpal_long_nopath_generic 2...[OK] Force long maxgap1 functions 1...[OK] Force long maxgap1 functions 2...[OK] echo; echo; echo 'TESTING THERMODYNAMIC ALIGNMENT CALCS'; echo; perl thal_test.pl ; TESTING THERMODYNAMIC ALIGNMENT CALCS Error handling of too-long sequence... 1................................... [OK] Default implementations + alignment...[OK] Default implementations + NO alignment 1...[OK] Default implementations + NO alignment 2...[OK] echo; echo; echo 'TESTING primer3_core'; echo; perl p3test.pl TESTING primer3_core p3test.pl for primer3_core version 2.3.5 p3test.pl: testing ../src/primer3_core START, Tue Feb 5 23:08:53 2013 testing fatal errors... ./primer_global_err/bad_divalent_dntp_conc_1 Testing -output and -error flags on ../src/primer3_core -strict_tags ./primer_global_err/bad_divalent_dntp_conc_1.in -output ./primer_global_err/bad_divalent_dntp_conc_1.tmp -error ./primer_global_err/bad_divalent_dntp_conc_1.tmp2 ./primer_global_err/bad_divalent_dntp_conc_2 ./primer_global_err/bad_divalent_dntp_conc_3 ./primer_global_err/bad_divalent_dntp_conc_4 ./primer_global_err/bad_dna_conc ./primer_global_err/bad_first_base_index ./primer_global_err/bad_float_1 ./primer_global_err/bad_float_2 ./primer_global_err/bad_float_3 ./primer_global_err/bad_float_4 ./primer_global_err/bad_gc_1 ./primer_global_err/bad_gc_2 ./primer_global_err/bad_gc_3 ./primer_global_err/bad_gc_int_1 ./primer_global_err/bad_gc_int_2 ./primer_global_err/bad_gc_int_3 ./primer_global_err/bad_min_three_prime_distance ./primer_global_err/bad_num_ns ./primer_global_err/bad_num_ns_int ./primer_global_err/bad_product_sizes_1 ./primer_global_err/bad_product_sizes_2 ./primer_global_err/bad_product_sizes_3 ./primer_global_err/bad_product_sizes_4 ./primer_global_err/bad_salt_conc ./primer_global_err/bad_self_any ./primer_global_err/bad_self_any_int ./primer_global_err/bad_self_end ./primer_global_err/bad_self_end_int ./primer_global_err/bad_settings0 ./primer_global_err/bad_settings1 ./primer_global_err/bad_settings2 ./primer_global_err/bad_settings3 ./primer_global_err/bad_settings4 ./primer_global_err/bad_settings5 ./primer_global_err/bad_settings6 ./primer_global_err/empty_1 ./primer_global_err/empty_product_size ./primer_global_err/gc_clamp_min_size ./primer_global_err/incorrect_task ./primer_global_err/io_gc_content_obj_fn ./primer_global_err/io_obj_fn ./primer_global_err/junction_overlap_max_size ./primer_global_err/junction_overlap_min_size ./primer_global_err/max_min_tm ./primer_global_err/max_min_tm_int ./primer_global_err/max_opt_tm ./primer_global_err/max_opt_tm_int ./primer_global_err/MAX_PRIMER_LENGTH ./primer_global_err/max_size_limit_int ./primer_global_err/max_size_min_product ./primer_global_err/max_size_min_product_int ./primer_global_err/min_opt_tm ./primer_global_err/min_opt_tm_int ./primer_global_err/mishyb_obj_fn ./primer_global_err/mispr_obj_fn ./primer_global_err/no_equal ./primer_global_err/no_terminal_equal ./primer_global_err/opt_max_size ./primer_global_err/opt_max_size_int ./primer_global_err/opt_min_size ./primer_global_err/opt_min_size_int ./primer_global_err/pair_mispr ./primer_global_err/pr_gc_content_obj_fn ./primer_global_err/product_size_obj_fn ./primer_global_err/product_tm_obj_fn ./primer_global_err/repeat_lib_err ./primer_global_err/repeat_lib_err1 ./primer_global_err/repeat_lib_err2 ./primer_global_err/repeat_lib_err3 ./primer_global_err/repeat_lib_err4 ./primer_global_err/repeat_lib_err5 ./primer_global_err/repeat_lib_err6 ./primer_global_err/repeat_lib_int_err ./primer_global_err/repeat_lib_int_err1 ./primer_global_err/repeat_lib_int_err2 ./primer_global_err/repeat_lib_int_err3 ./primer_global_err/repeat_lib_int_err4 ./primer_global_err/repeat_lib_int_err5 ./primer_global_err/repeat_lib_int_err6 ./primer_global_err/seq_quality1 ./primer_global_err/seq_quality2 ./primer_global_err/seq_quality3 ./primer_global_err/seq_quality4 ./primer_global_err/too_many_product_sizes ./primer_global_err/zero_min_size ./primer_global_err/zero_num_return [OK] primer_must_use_th...1s [OK] primer_task_th...3s [OK] primer_thal_args...1s [OK] primer_thal_max_seq_error...1s [OK] primer_first_base_index...0s [OK] test_compl_error...0s [OK] test_left_to_right_of_right...0s [OK] dv_conc_vs_dntp_conc...0s [OK] primer_boundary...0s [OK] primer_boundary1...0s [OK] primer_boundary_formatted...1s [OK] primer_boundary1_formatted...0s [OK] primer3_v1_1_4_default_settings...0s [OK] primer3web_v0_4_0_default_settings...0s [OK] primer3web_v3_0_0_default_settings...4s [OK] primer3web_v4_0_0_default_settings...0s [OK] primer_internal...0s [OK] primer_internal1...0s [OK] primer_internal_formatted...0s [OK] primer_internal1_formatted...0s [OK] primer_ok_regions...0s [OK] primer_ok_regions_formatted...0s [OK] primer_ok_regions2...14s [OK] primer_tm_lc_masking...0s [OK] primer_tm_lc_masking_formatted...0s [OK] primer_start_codon...0s [OK] primer_task...0s [OK] primer_task_formatted...0s [OK] primer_renewed_tasks...0s [OK] primer_new_tasks...1s [OK] primer_new_tasks_formatted...0s [OK] primer_must_overlap_point...1s [OK] primer_overlap_junction...0s [OK] primer_all_settingsfiles...0s [OK] primer_high_tm_load_set...0s [OK] primer_high_gc_load_set...0s [OK] primer_gc_end...0s [OK] primer_check...0s [OK] primer_must_use...0s [OK] primer_must_use_formatted...0s [OK] primer_syntax...0s [OK] primer_end_pathology...0s [OK] primer_num_best...0s [OK] primer_quality_boundary...0s [OK] primer...2s [OK] primer_list_files...[OK] primer1...0s [OK] primer1_list_files...[OK] primer_mispriming...1s [OK] primer_mispriming_formatted...1s [OK] primer_mispriming_boundary1...0s [OK] primer_mispriming_boundary1_formatted...0s [OK] primer_mispriming_boundary2...0s [OK] primer_mispriming_boundary2_formatted...0s [OK] primer_mispriming_long_lib...0s [OK] primer_rat...0s [OK] primer_human...2s [OK] long_seq...0s [OK] primer_position_penalty...1s [OK] primer_position_penalty_formatted...2s [OK] p3-tmpl-mispriming...0s [OK] primer_three_prime_distance...0s [OK] primer_obj_fn...3s [OK] p3_3_prime_n...1s [OK] primer_mispriming_th...30s [OK] th-w-other-tasks...33s [OK] th-w-other-tasks_list_files...[OK] primer_new_tasks_th...70s [OK] primer_thermod_align...99s [OK] primer_thermod_align_formatted...99s [OK] primer1_th...888s [OK] primer1_th_list_files...[OK] primer_lib_amb_codes... NOTE: this test takes _much_ longer than the others (10 to 20 minutes or more). starting primer_lib_amb_codes at Tue Feb 5 23:29:52 2013...232s [OK] Tests in p3test.pl ran for 1491 s DONE Tue Feb 5 23:33:44 2013 Passed all tests - [OK] echo; echo; echo "Testing completed. You must check the test output for the string FAILED"; echo; echo; Testing completed. You must check the test output for the string FAILED make[1]: Leaving directory `/build/buildd/primer3-2.3.5/test' touch debian/stamp-makefile-check /usr/bin/fakeroot debian/rules binary test -x debian/rules dh_testroot dh_prep dh_installdirs -A mkdir -p "." DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target Adding cdbs dependencies to debian/primer3.substvars dh_installdirs -pprimer3 dh_installdocs -pprimer3 dh_installexamples -pprimer3 dh_installman -pprimer3 dh_installinfo -pprimer3 dh_installmenu -pprimer3 dh_installcron -pprimer3 dh_installinit -pprimer3 dh_installdebconf -pprimer3 dh_installemacsen -pprimer3 dh_installcatalogs -pprimer3 dh_installpam -pprimer3 dh_installlogrotate -pprimer3 dh_installlogcheck -pprimer3 dh_installchangelogs -pprimer3 dh_installudev -pprimer3 dh_lintian -pprimer3 dh_bugfiles -pprimer3 dh_install -pprimer3 dh_link -pprimer3 dh_installmime -pprimer3 dh_installgsettings -pprimer3 dh_strip -pprimer3 dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: primer3 dh_strip debug symbol extraction: packages to act on: primer3 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 `primer3-dbgsym' in `../primer3-dbgsym_2.3.5-1_i386.ddeb'. dh_compress -pprimer3 dh_fixperms -pprimer3 dh_makeshlibs -pprimer3 dh_installdeb -pprimer3 dh_perl -pprimer3 dh_shlibdeps -pprimer3 dh_gencontrol -pprimer3 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe # only call dh_scour for packages in main if grep -q '^Component:[[:space:]]*main' /CurrentlyBuilding 2>/dev/null; then dh_scour -pprimer3 ; fi dh_md5sums -pprimer3 dh_builddeb -pprimer3 INFO: pkgstriptranslations version 117 pkgstriptranslations: processing primer3 (in debian/primer3); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/primer3/DEBIAN/control, package primer3, directory debian/primer3 pkgstripfiles: Truncating usr/share/doc/primer3/changelog.Debian.gz to topmost ten records pkgstripfiles: PNG optimization for package primer3 took 0 s dpkg-deb: warning: 'debian/primer3/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `primer3' in `../primer3_2.3.5-1_i386.deb'. dpkg-genchanges -b -mUbuntu/amd64 Build Daemon >../primer3_2.3.5-1_i386.changes dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build primer3-2.3.5 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20130205-2333 Publishing debug debs. chroot-autobuild/build/buildd/primer3_2.3.5-1_i386.deb: new debian package, version 2.0. size 185768 bytes: control archive= 1171 bytes. 942 bytes, 19 lines control 859 bytes, 13 lines md5sums Package: primer3 Version: 2.3.5-1 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 527 Depends: libc6 (>= 2.11), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.1.1) Suggests: ncbi-epcr Enhances: emboss Section: science Priority: optional Homepage: http://primer3.sourceforge.net Description: Tool to design flanking oligo nucleotides for DNA amplification Primer3 picks primers for Polymerase Chain Reactions (PCRs), considering as criteria oligonucleotide melting temperature, size, GC content and primer-dimer possibilities, PCR product size, positional constraints within the source sequence, and miscellaneous other constraints. All of these criteria are user-specifiable as constraints, and some are specifiable as terms in an objective function that characterizes an optimal primer pair. chroot-autobuild/build/buildd/primer3_2.3.5-1_i386.deb: drwxr-xr-x root/root 0 2013-02-05 23:33 ./ drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/ drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/ drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/doc/ drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/doc/primer3/ -rw-r--r-- root/root 8535 2013-01-07 05:19 ./usr/share/doc/primer3/release_notes.txt.gz -rw-r--r-- root/root 306 2012-03-26 06:36 ./usr/share/doc/primer3/README.test -rw-r--r-- root/root 198781 2013-01-07 05:23 ./usr/share/doc/primer3/primer3_manual.htm -rw-r--r-- root/root 2124 2013-02-05 23:33 ./usr/share/doc/primer3/changelog.Debian.gz drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/doc/primer3/examples/ -rw-r--r-- root/root 480 2013-01-07 05:19 ./usr/share/doc/primer3/examples/example -rw-r--r-- root/root 2413 2013-02-05 09:22 ./usr/share/doc/primer3/copyright drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/doc-base/ -rw-r--r-- root/root 660 2010-11-17 14:04 ./usr/share/doc-base/primer3-manual drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/man/ drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/share/man/man1/ -rw-r--r-- root/root 1858 2013-02-05 23:33 ./usr/share/man/man1/ntdpal.1.gz -rw-r--r-- root/root 1710 2013-02-05 23:33 ./usr/share/man/man1/oligotm.1.gz -rw-r--r-- root/root 1674 2013-02-05 23:33 ./usr/share/man/man1/primer3_core.1.gz drwxr-xr-x root/root 0 2013-02-05 23:33 ./usr/bin/ -rwxr-xr-x root/root 17880 2013-02-05 23:33 ./usr/bin/oligotm -rwxr-xr-x root/root 235216 2013-02-05 23:33 ./usr/bin/primer3_core -rwxr-xr-x root/root 22060 2013-02-05 23:33 ./usr/bin/ntdpal primer3_2.3.5-1_i386.changes: Format: 1.8 Date: Tue, 05 Feb 2013 10:11:37 +0100 Source: primer3 Binary: primer3 Architecture: i386 Version: 2.3.5-1 Distribution: raring-proposed Urgency: low Maintainer: Ubuntu/amd64 Build Daemon Changed-By: Andreas Tille Description: primer3 - Tool to design flanking oligo nucleotides for DNA amplification Changes: primer3 (2.3.5-1) unstable; urgency=low . New upstream release. . [ Andreas Tille ] * debian/upstream: - Remove duplicated entry for PMID - Added Volume, fixed Number - Added URL+eprint * debian/control: - Removed DM-Upload-Allowed - Standards-Version: 3.9.4 (no changes needed) * debhelper 9 (control+compat) * debian/copyright: PD License should be avoided - bumped packaging to same license as program itself Checksums-Sha1: 5abf73aa945fcced4881262317856019a3958c4d 185768 primer3_2.3.5-1_i386.deb Checksums-Sha256: d9a2cb5ee9feb474c20be23cf345bd197eb08b8cdb5a39ed5b4db6d0ef54e3ea 185768 primer3_2.3.5-1_i386.deb Files: 4f3b8b0f33c3c64a8324bfab9642d2e4 185768 science optional primer3_2.3.5-1_i386.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20130205-2333 Build needed 00:25:21, 25464k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '45f36d8d165519b80bfc428acdde663514db0089'] Scanning for processes to kill in build /home/buildd/build-45f36d8d165519b80bfc428acdde663514db0089/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '45f36d8d165519b80bfc428acdde663514db0089'] Unmounting chroot for build 45f36d8d165519b80bfc428acdde663514db0089... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '45f36d8d165519b80bfc428acdde663514db0089'] Removing build 45f36d8d165519b80bfc428acdde663514db0089