RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '1479218-3036760', '/home/buildd/filecache-default/69315e5c826cb52f9fad21f67604a64b5e7eb55c'] Synching the system clock with the buildd NTP service... 2 Feb 12:00:54 ntpdate[671]: adjust time server 10.122.37.1 offset 0.000202 sec Unpacking chroot for build 1479218-3036760 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '1479218-3036760'] Mounting chroot for build 1479218-3036760 RUN: /usr/share/launchpad-buildd/slavebin/apply-ogre-model ['apply-ogre-model', '1479218-3036760', 'universe'] Attempting OGRE for universe in build-1479218-3036760 No OGRE sources.list found. RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '1479218-3036760', 'deb http://ftpmaster.internal/ubuntu lucid main universe'] Overriding sources.list in build-1479218-3036760 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '1479218-3036760'] Updating debian chroot for build 1479218-3036760 Get:1 http://ftpmaster.internal lucid Release.gpg [189B] Get:2 http://ftpmaster.internal lucid Release [57.2kB] Get:3 http://ftpmaster.internal lucid/main Packages [1415kB] Get:4 http://ftpmaster.internal lucid/universe Packages [5405kB] Fetched 6877kB in 4s (1583kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: apt apt-transport-https cpp-4.4 g++-4.4 gcc-4.4 gcc-4.4-base gzip libc-bin libc-dev-bin libc6 libc6-dev libgcc1 libgmp3c2 libgomp1 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libpam-modules libpam-runtime libpam0g libpng12-0 libssl0.9.8 libstdc++6 libstdc++6-4.4-dev linux-libc-dev login openssl passwd python2.6-minimal tzdata 31 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 31.5MB of archives. After this operation, 8192B of additional disk space will be used. WARNING: The following packages cannot be authenticated! gzip login libpam-modules libc-dev-bin libc6-dev libc-bin libc6 linux-libc-dev libgomp1 cpp-4.4 gcc-4.4-base libgcc1 gcc-4.4 g++-4.4 libstdc++6-4.4-dev libstdc++6 libgmp3c2 tzdata apt libpam-runtime libpam0g libssl0.9.8 passwd python2.6-minimal libgssapi-krb5-2 libkrb5-3 libkrb5support0 libk5crypto3 openssl libpng12-0 apt-transport-https Authentication warning overridden. Get:1 http://ftpmaster.internal lucid/main gzip 1.3.12-9ubuntu1 [107kB] Get:2 http://ftpmaster.internal lucid/main login 1:4.1.4.2-1ubuntu2 [324kB] Get:3 http://ftpmaster.internal lucid/main libpam-modules 1.1.1-1ubuntu1 [378kB] Get:4 http://ftpmaster.internal lucid/main libc-dev-bin 2.11.1-0ubuntu2 [222kB] Get:5 http://ftpmaster.internal lucid/main libc6-dev 2.11.1-0ubuntu2 [2689kB] Get:6 http://ftpmaster.internal lucid/main libc-bin 2.11.1-0ubuntu2 [799kB] Get:7 http://ftpmaster.internal lucid/main libc6 2.11.1-0ubuntu2 [4242kB] Get:8 http://ftpmaster.internal lucid/main linux-libc-dev 2.6.32-12.16 [743kB] Get:9 http://ftpmaster.internal lucid/main libgomp1 4.4.3-2ubuntu1 [25.5kB] Get:10 http://ftpmaster.internal lucid/main cpp-4.4 4.4.3-2ubuntu1 [3900kB] Get:11 http://ftpmaster.internal lucid/main gcc-4.4-base 4.4.3-2ubuntu1 [117kB] Get:12 http://ftpmaster.internal lucid/main libgcc1 1:4.4.3-2ubuntu1 [44.9kB] Get:13 http://ftpmaster.internal lucid/main gcc-4.4 4.4.3-2ubuntu1 [2873kB] Get:14 http://ftpmaster.internal lucid/main g++-4.4 4.4.3-2ubuntu1 [5494kB] Get:15 http://ftpmaster.internal lucid/main libstdc++6-4.4-dev 4.4.3-2ubuntu1 [1526kB] Get:16 http://ftpmaster.internal lucid/main libstdc++6 4.4.3-2ubuntu1 [342kB] Get:17 http://ftpmaster.internal lucid/main libgmp3c2 2:4.3.2+dfsg-1 [315kB] Get:18 http://ftpmaster.internal lucid/main tzdata 2010b-1 [682kB] Get:19 http://ftpmaster.internal lucid/main apt 0.7.25ubuntu3 [1792kB] Get:20 http://ftpmaster.internal lucid/main libpam-runtime 1.1.1-1ubuntu1 [114kB] Get:21 http://ftpmaster.internal lucid/main libpam0g 1.1.1-1ubuntu1 [126kB] Get:22 http://ftpmaster.internal lucid/main libssl0.9.8 0.9.8k-7ubuntu5 [968kB] Get:23 http://ftpmaster.internal lucid/main passwd 1:4.1.4.2-1ubuntu2 [954kB] Get:24 http://ftpmaster.internal lucid/main python2.6-minimal 2.6.4-5ubuntu1 [1440kB] Get:25 http://ftpmaster.internal lucid/main libgssapi-krb5-2 1.8+dfsg~alpha1-5 [126kB] Get:26 http://ftpmaster.internal lucid/main libkrb5-3 1.8+dfsg~alpha1-5 [370kB] Get:27 http://ftpmaster.internal lucid/main libkrb5support0 1.8+dfsg~alpha1-5 [42.9kB] Get:28 http://ftpmaster.internal lucid/main libk5crypto3 1.8+dfsg~alpha1-5 [103kB] Get:29 http://ftpmaster.internal lucid/main openssl 0.9.8k-7ubuntu5 [406kB] Get:30 http://ftpmaster.internal lucid/main libpng12-0 1.2.42-1ubuntu1 [180kB] Get:31 http://ftpmaster.internal lucid/main apt-transport-https 0.7.25ubuntu3 [78.0kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 31.5MB in 1s (31.0MB/s) (Reading database ... 12782 files and directories currently installed.) Preparing to replace gzip 1.3.12-8ubuntu1 (using .../gzip_1.3.12-9ubuntu1_amd64.deb) ... install-info: warning: maintainer scripts should not call install-info anymore, install-info: warning: this is handled now by a dpkg trigger provided by the install-info: warning: install-info package; package gzip should be updated. Unpacking replacement gzip ... Setting up gzip (1.3.12-9ubuntu1) ... (Reading database ... 12782 files and directories currently installed.) Preparing to replace login 1:4.1.4.2-1ubuntu1 (using .../login_1%3a4.1.4.2-1ubuntu2_amd64.deb) ... Unpacking replacement login ... Setting up login (1:4.1.4.2-1ubuntu2) ... (Reading database ... 12785 files and directories currently installed.) Preparing to replace libpam-modules 1.1.0-4ubuntu3 (using .../libpam-modules_1.1.1-1ubuntu1_amd64.deb) ... Unpacking replacement libpam-modules ... Setting up libpam-modules (1.1.1-1ubuntu1) ... (Reading database ... 12786 files and directories currently installed.) Preparing to replace libc-dev-bin 2.11.1-0ubuntu1 (using .../libc-dev-bin_2.11.1-0ubuntu2_amd64.deb) ... Unpacking replacement libc-dev-bin ... Preparing to replace libc6-dev 2.11.1-0ubuntu1 (using .../libc6-dev_2.11.1-0ubuntu2_amd64.deb) ... Unpacking replacement libc6-dev ... Preparing to replace libc-bin 2.11.1-0ubuntu1 (using .../libc-bin_2.11.1-0ubuntu2_amd64.deb) ... Unpacking replacement libc-bin ... Setting up libc-bin (2.11.1-0ubuntu2) ... (Reading database ... 12786 files and directories currently installed.) Preparing to replace libc6 2.11.1-0ubuntu1 (using .../libc6_2.11.1-0ubuntu2_amd64.deb) ... Unpacking replacement libc6 ... Setting up libc6 (2.11.1-0ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12786 files and directories currently installed.) Preparing to replace linux-libc-dev 2.6.32-10.14 (using .../linux-libc-dev_2.6.32-12.16_amd64.deb) ... Unpacking replacement linux-libc-dev ... Preparing to replace libgomp1 4.4.2-9ubuntu4 (using .../libgomp1_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement libgomp1 ... Preparing to replace cpp-4.4 4.4.2-9ubuntu4 (using .../cpp-4.4_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement cpp-4.4 ... Preparing to replace gcc-4.4-base 4.4.2-9ubuntu4 (using .../gcc-4.4-base_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement gcc-4.4-base ... Setting up gcc-4.4-base (4.4.3-2ubuntu1) ... (Reading database ... 12785 files and directories currently installed.) Preparing to replace libgcc1 1:4.4.2-9ubuntu4 (using .../libgcc1_1%3a4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.4.3-2ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12785 files and directories currently installed.) Preparing to replace gcc-4.4 4.4.2-9ubuntu4 (using .../gcc-4.4_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement gcc-4.4 ... Preparing to replace g++-4.4 4.4.2-9ubuntu4 (using .../g++-4.4_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement g++-4.4 ... Preparing to replace libstdc++6-4.4-dev 4.4.2-9ubuntu4 (using .../libstdc++6-4.4-dev_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement libstdc++6-4.4-dev ... Preparing to replace libstdc++6 4.4.2-9ubuntu4 (using .../libstdc++6_4.4.3-2ubuntu1_amd64.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.4.3-2ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12785 files and directories currently installed.) Preparing to replace libgmp3c2 2:4.3.1+dfsg-3 (using .../libgmp3c2_2%3a4.3.2+dfsg-1_amd64.deb) ... Unpacking replacement libgmp3c2 ... Preparing to replace tzdata 2009u-1 (using .../tzdata_2010b-1_all.deb) ... Unpacking replacement tzdata ... Setting up tzdata (2010b-1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Feb 2 12:01:26 UTC 2010. Universal Time is now: Tue Feb 2 12:01:26 UTC 2010. Run 'dpkg-reconfigure tzdata' if you wish to change it. (Reading database ... 12794 files and directories currently installed.) Preparing to replace apt 0.7.25ubuntu2 (using .../apt_0.7.25ubuntu3_amd64.deb) ... Unpacking replacement apt ... Setting up apt (0.7.25ubuntu3) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12794 files and directories currently installed.) Preparing to replace libpam-runtime 1.1.0-4ubuntu3 (using .../libpam-runtime_1.1.1-1ubuntu1_all.deb) ... Unpacking replacement libpam-runtime ... Setting up libpam-runtime (1.1.1-1ubuntu1) ... (Reading database ... 12794 files and directories currently installed.) Preparing to replace libpam0g 1.1.0-4ubuntu3 (using .../libpam0g_1.1.1-1ubuntu1_amd64.deb) ... Unpacking replacement libpam0g ... Setting up libpam0g (1.1.1-1ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12794 files and directories currently installed.) Preparing to replace libssl0.9.8 0.9.8k-7ubuntu4 (using .../libssl0.9.8_0.9.8k-7ubuntu5_amd64.deb) ... Unpacking replacement libssl0.9.8 ... Setting up libssl0.9.8 (0.9.8k-7ubuntu5) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12794 files and directories currently installed.) Preparing to replace passwd 1:4.1.4.2-1ubuntu1 (using .../passwd_1%3a4.1.4.2-1ubuntu2_amd64.deb) ... Unpacking replacement passwd ... Setting up passwd (1:4.1.4.2-1ubuntu2) ... (Reading database ... 12794 files and directories currently installed.) Preparing to replace python2.6-minimal 2.6.4-1ubuntu2 (using .../python2.6-minimal_2.6.4-5ubuntu1_amd64.deb) ... Unpacking replacement python2.6-minimal ... Setting up python2.6-minimal (2.6.4-5ubuntu1) ... Linking and byte-compiling packages for runtime python2.6... (Reading database ... 12794 files and directories currently installed.) Preparing to replace libgssapi-krb5-2 1.7+dfsg-4 (using .../libgssapi-krb5-2_1.8+dfsg~alpha1-5_amd64.deb) ... Unpacking replacement libgssapi-krb5-2 ... Preparing to replace libkrb5-3 1.7+dfsg-4 (using .../libkrb5-3_1.8+dfsg~alpha1-5_amd64.deb) ... Unpacking replacement libkrb5-3 ... Preparing to replace libkrb5support0 1.7+dfsg-4 (using .../libkrb5support0_1.8+dfsg~alpha1-5_amd64.deb) ... Unpacking replacement libkrb5support0 ... Preparing to replace libk5crypto3 1.7+dfsg-4 (using .../libk5crypto3_1.8+dfsg~alpha1-5_amd64.deb) ... Unpacking replacement libk5crypto3 ... Preparing to replace openssl 0.9.8k-7ubuntu4 (using .../openssl_0.9.8k-7ubuntu5_amd64.deb) ... Unpacking replacement openssl ... Preparing to replace libpng12-0 1.2.41-1 (using .../libpng12-0_1.2.42-1ubuntu1_amd64.deb) ... Unpacking replacement libpng12-0 ... Preparing to replace apt-transport-https 0.7.25ubuntu2 (using .../apt-transport-https_0.7.25ubuntu3_amd64.deb) ... Unpacking replacement apt-transport-https ... Setting up libc-dev-bin (2.11.1-0ubuntu2) ... Setting up linux-libc-dev (2.6.32-12.16) ... Setting up libc6-dev (2.11.1-0ubuntu2) ... Setting up libgomp1 (4.4.3-2ubuntu1) ... Setting up libgmp3c2 (2:4.3.2+dfsg-1) ... Setting up cpp-4.4 (4.4.3-2ubuntu1) ... Setting up gcc-4.4 (4.4.3-2ubuntu1) ... Setting up libkrb5support0 (1.8+dfsg~alpha1-5) ... Setting up libk5crypto3 (1.8+dfsg~alpha1-5) ... Setting up libkrb5-3 (1.8+dfsg~alpha1-5) ... Setting up libgssapi-krb5-2 (1.8+dfsg~alpha1-5) ... Setting up openssl (0.9.8k-7ubuntu5) ... Setting up libpng12-0 (1.2.42-1ubuntu1) ... Setting up apt-transport-https (0.7.25ubuntu3) ... Setting up libstdc++6-4.4-dev (4.4.3-2ubuntu1) ... Setting up g++-4.4 (4.4.3-2ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '1479218-3036760', 'lucid', '--nolog', '--batch', '--archive=ubuntu', '--dist=lucid', '--purpose=PRIMARY', '--comp=universe', 'tigr-glimmer_3.02-2.dsc'] Initiating build 1479218-3036760 with 2 processor cores. Automatic build of tigr-glimmer_3.02-2 on yellow by sbuild/amd64 1.170.5 Build started at 20100202-1201 ****************************************************************************** tigr-glimmer_3.02-2.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 7), docbook-to-man, cdbs, quilt Checking for already installed source dependencies... debhelper: missing docbook-to-man: missing cdbs: missing quilt: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper docbook-to-man cdbs quilt Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autoconf automake autotools-dev bsdmainutils diffstat docbook fdupes file gettext gettext-base groff-base html2text intltool intltool-debian libcroco3 libexpat1 libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 libpcre3 libsp1c2 liburi-perl libwww-perl libxml-parser-perl libxml2 m4 man-db po-debconf sgml-base sgml-data sp xml-core Suggested packages: autoconf2.13 autoconf-archive gnu-standards autoconf-doc libtool wamerican wordlist whois vacation devscripts doc-base dh-make psgml docbook-dsssl docbook-xml docbook-defguide gettext-doc groff libdata-dump-perl libcrypt-ssleay-perl libio-socket-ssl-perl less www-browser libmail-box-perl procmail graphviz sgml-base-doc perlsgml doc-html-w3 opensp libxml2-utils Recommended packages: curl wget lynx cvs libglib2.0-data shared-mime-info libmailtools-perl libhtml-format-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autotools-dev bsdmainutils cdbs debhelper diffstat docbook docbook-to-man fdupes file gettext gettext-base groff-base html2text intltool intltool-debian libcroco3 libexpat1 libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 libpcre3 libsp1c2 liburi-perl libwww-perl libxml-parser-perl libxml2 m4 man-db po-debconf quilt sgml-base sgml-data sp xml-core 0 upgraded, 38 newly installed, 0 to remove and 0 not upgraded. Need to get 15.1MB of archives. After this operation, 49.1MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libmagic1 file libpcre3 libglib2.0-0 libxml2 sgml-base xml-core bsdmainutils gettext-base groff-base libexpat1 liburi-perl libhtml-tagset-perl libhtml-parser-perl libhtml-tree-perl libwww-perl libxml-parser-perl man-db m4 autoconf autotools-dev automake html2text libcroco3 gettext intltool-debian po-debconf debhelper fdupes intltool cdbs diffstat sgml-data docbook libsp1c2 sp docbook-to-man quilt Authentication warning overridden. Get:1 http://ftpmaster.internal lucid/main libmagic1 5.03-5 [392kB] Get:2 http://ftpmaster.internal lucid/main file 5.03-5 [47.9kB] Get:3 http://ftpmaster.internal lucid/main libpcre3 7.8-3 [216kB] Get:4 http://ftpmaster.internal lucid/main libglib2.0-0 2.23.2-2ubuntu2 [1065kB] Get:5 http://ftpmaster.internal lucid/main libxml2 2.7.6.dfsg-1ubuntu1 [871kB] Get:6 http://ftpmaster.internal lucid/main sgml-base 1.26 [11.7kB] Get:7 http://ftpmaster.internal lucid/main xml-core 0.13 [23.4kB] Get:8 http://ftpmaster.internal lucid/main bsdmainutils 8.0.1ubuntu1 [199kB] Get:9 http://ftpmaster.internal lucid/main gettext-base 0.17-8ubuntu2 [78.4kB] Get:10 http://ftpmaster.internal lucid/main groff-base 1.20.1-6 [1129kB] Get:11 http://ftpmaster.internal lucid/main libexpat1 2.0.1-7ubuntu1 [138kB] Get:12 http://ftpmaster.internal lucid/main liburi-perl 1.50-1ubuntu1 [96.8kB] Get:13 http://ftpmaster.internal lucid/main libhtml-tagset-perl 3.20-2 [13.5kB] Get:14 http://ftpmaster.internal lucid/main libhtml-parser-perl 3.64-1 [114kB] Get:15 http://ftpmaster.internal lucid/main libhtml-tree-perl 3.23-1 [209kB] Get:16 http://ftpmaster.internal lucid/main libwww-perl 5.834-1 [401kB] Get:17 http://ftpmaster.internal lucid/main libxml-parser-perl 2.36-1.1build2 [324kB] Get:18 http://ftpmaster.internal lucid/main man-db 2.5.6-5 [1385kB] Get:19 http://ftpmaster.internal lucid/main m4 1.4.13-3 [286kB] Get:20 http://ftpmaster.internal lucid/main autoconf 2.65-3ubuntu1 [772kB] Get:21 http://ftpmaster.internal lucid/main autotools-dev 20090611.1 [64.1kB] Get:22 http://ftpmaster.internal lucid/main automake 1:1.11.1-1 [608kB] Get:23 http://ftpmaster.internal lucid/main html2text 1.3.2a-14 [104kB] Get:24 http://ftpmaster.internal lucid/main libcroco3 0.6.2-1 [101kB] Get:25 http://ftpmaster.internal lucid/main gettext 0.17-8ubuntu2 [1805kB] Get:26 http://ftpmaster.internal lucid/main intltool-debian 0.35.0+20060710.1 [31.6kB] Get:27 http://ftpmaster.internal lucid/main po-debconf 1.0.16 [224kB] Get:28 http://ftpmaster.internal lucid/main debhelper 7.4.11ubuntu1 [463kB] Get:29 http://ftpmaster.internal lucid/main fdupes 1.50-PR2-2 [20.1kB] Get:30 http://ftpmaster.internal lucid/main intltool 0.41.0-0ubuntu1 [52.5kB] Get:31 http://ftpmaster.internal lucid/main cdbs 0.4.62+nmu1ubuntu4 [1023kB] Get:32 http://ftpmaster.internal lucid/main diffstat 1.47-1 [24.7kB] Get:33 http://ftpmaster.internal lucid/main sgml-data 2.0.4 [275kB] Get:34 http://ftpmaster.internal lucid/main docbook 4.5-4 [450kB] Get:35 http://ftpmaster.internal lucid/main libsp1c2 1.3.4-1.2.1-47build2 [1471kB] Get:36 http://ftpmaster.internal lucid/main sp 1.3.4-1.2.1-47build2 [173kB] Get:37 http://ftpmaster.internal lucid/main docbook-to-man 1:2.0.0-27 [82.3kB] Get:38 http://ftpmaster.internal lucid/main quilt 0.48-4ubuntu1 [318kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 15.1MB in 0s (26.8MB/s) Selecting previously deselected package libmagic1. (Reading database ... 12794 files and directories currently installed.) Unpacking libmagic1 (from .../libmagic1_5.03-5_amd64.deb) ... Selecting previously deselected package file. Unpacking file (from .../archives/file_5.03-5_amd64.deb) ... Selecting previously deselected package libpcre3. Unpacking libpcre3 (from .../libpcre3_7.8-3_amd64.deb) ... Selecting previously deselected package libglib2.0-0. Unpacking libglib2.0-0 (from .../libglib2.0-0_2.23.2-2ubuntu2_amd64.deb) ... Selecting previously deselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.6.dfsg-1ubuntu1_amd64.deb) ... Selecting previously deselected package sgml-base. Unpacking sgml-base (from .../sgml-base_1.26_all.deb) ... Selecting previously deselected package xml-core. Unpacking xml-core (from .../archives/xml-core_0.13_all.deb) ... Selecting previously deselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.0.1ubuntu1_amd64.deb) ... Selecting previously deselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.17-8ubuntu2_amd64.deb) ... Selecting previously deselected package groff-base. Unpacking groff-base (from .../groff-base_1.20.1-6_amd64.deb) ... Selecting previously deselected package libexpat1. Unpacking libexpat1 (from .../libexpat1_2.0.1-7ubuntu1_amd64.deb) ... Selecting previously deselected package liburi-perl. Unpacking liburi-perl (from .../liburi-perl_1.50-1ubuntu1_all.deb) ... Selecting previously deselected package libhtml-tagset-perl. Unpacking libhtml-tagset-perl (from .../libhtml-tagset-perl_3.20-2_all.deb) ... Selecting previously deselected package libhtml-parser-perl. Unpacking libhtml-parser-perl (from .../libhtml-parser-perl_3.64-1_amd64.deb) ... Selecting previously deselected package libhtml-tree-perl. Unpacking libhtml-tree-perl (from .../libhtml-tree-perl_3.23-1_all.deb) ... Selecting previously deselected package libwww-perl. Unpacking libwww-perl (from .../libwww-perl_5.834-1_all.deb) ... Selecting previously deselected package libxml-parser-perl. Unpacking libxml-parser-perl (from .../libxml-parser-perl_2.36-1.1build2_amd64.deb) ... Selecting previously deselected package man-db. Unpacking man-db (from .../man-db_2.5.6-5_amd64.deb) ... Selecting previously deselected package m4. Unpacking m4 (from .../archives/m4_1.4.13-3_amd64.deb) ... Selecting previously deselected package autoconf. Unpacking autoconf (from .../autoconf_2.65-3ubuntu1_all.deb) ... Selecting previously deselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20090611.1_all.deb) ... Selecting previously deselected package automake. Unpacking automake (from .../automake_1%3a1.11.1-1_all.deb) ... Selecting previously deselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-14_amd64.deb) ... Selecting previously deselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ... Selecting previously deselected package gettext. Unpacking gettext (from .../gettext_0.17-8ubuntu2_amd64.deb) ... Selecting previously deselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously deselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16_all.deb) ... Selecting previously deselected package debhelper. Unpacking debhelper (from .../debhelper_7.4.11ubuntu1_all.deb) ... Selecting previously deselected package fdupes. Unpacking fdupes (from .../fdupes_1.50-PR2-2_amd64.deb) ... Selecting previously deselected package intltool. Unpacking intltool (from .../intltool_0.41.0-0ubuntu1_all.deb) ... Selecting previously deselected package cdbs. Unpacking cdbs (from .../cdbs_0.4.62+nmu1ubuntu4_all.deb) ... Selecting previously deselected package diffstat. Unpacking diffstat (from .../diffstat_1.47-1_amd64.deb) ... Selecting previously deselected package sgml-data. Unpacking sgml-data (from .../sgml-data_2.0.4_all.deb) ... Selecting previously deselected package docbook. Unpacking docbook (from .../archives/docbook_4.5-4_all.deb) ... Selecting previously deselected package libsp1c2. Unpacking libsp1c2 (from .../libsp1c2_1.3.4-1.2.1-47build2_amd64.deb) ... Selecting previously deselected package sp. Unpacking sp (from .../sp_1.3.4-1.2.1-47build2_amd64.deb) ... Selecting previously deselected package docbook-to-man. Unpacking docbook-to-man (from .../docbook-to-man_1%3a2.0.0-27_amd64.deb) ... Selecting previously deselected package quilt. Unpacking quilt (from .../quilt_0.48-4ubuntu1_all.deb) ... Setting up libmagic1 (5.03-5) ... Setting up file (5.03-5) ... Setting up libpcre3 (7.8-3) ... Setting up libglib2.0-0 (2.23.2-2ubuntu2) ... Setting up libxml2 (2.7.6.dfsg-1ubuntu1) ... Setting up sgml-base (1.26) ... Setting up xml-core (0.13) ... Setting up bsdmainutils (8.0.1ubuntu1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. Setting up gettext-base (0.17-8ubuntu2) ... Setting up groff-base (1.20.1-6) ... Setting up libexpat1 (2.0.1-7ubuntu1) ... Setting up liburi-perl (1.50-1ubuntu1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up libhtml-parser-perl (3.64-1) ... Setting up libhtml-tree-perl (3.23-1) ... Setting up libwww-perl (5.834-1) ... Setting up libxml-parser-perl (2.36-1.1build2) ... Setting up man-db (2.5.6-5) ... Building database of manual pages ... Setting up m4 (1.4.13-3) ... Setting up autoconf (2.65-3ubuntu1) ... Setting up autotools-dev (20090611.1) ... Setting up automake (1:1.11.1-1) ... update-alternatives: using /usr/bin/automake-1.11 to provide /usr/bin/automake (automake) in auto mode. Setting up html2text (1.3.2a-14) ... Setting up libcroco3 (0.6.2-1) ... Setting up gettext (0.17-8ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16) ... Setting up debhelper (7.4.11ubuntu1) ... Setting up fdupes (1.50-PR2-2) ... Setting up intltool (0.41.0-0ubuntu1) ... Setting up cdbs (0.4.62+nmu1ubuntu4) ... Setting up diffstat (1.47-1) ... Setting up sgml-data (2.0.4) ... Setting up docbook (4.5-4) ... Setting up libsp1c2 (1.3.4-1.2.1-47build2) ... Setting up sp (1.3.4-1.2.1-47build2) ... Setting up docbook-to-man (1:2.0.0-27) ... Setting up quilt (0.48-4ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.11.1-0ubuntu2 make_3.81-7 dpkg-dev_1.15.4.1ubuntu1 g++-4.4_4.4.3-2ubuntu1 gcc-4.4_4.4.3-2ubuntu1 binutils_2.20-5ubuntu1 libstdc++6_4.4.3-2ubuntu1 libstdc++6-4.4-dev_4.4.3-2ubuntu1 ------------------------------------------------------------------------------ gpgv: Signature made Thu Jan 21 22:14:57 2010 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./tigr-glimmer_3.02-2.dsc dpkg-source: info: extracting tigr-glimmer in tigr-glimmer-3.02 dpkg-source: info: unpacking tigr-glimmer_3.02.orig.tar.gz dpkg-source: info: applying tigr-glimmer_3.02-2.diff.gz dpkg-buildpackage: set CFLAGS to default value: -g -O2 dpkg-buildpackage: set CPPFLAGS to default value: dpkg-buildpackage: set LDFLAGS to default value: -Wl,-Bsymbolic-functions dpkg-buildpackage: set FFLAGS to default value: -g -O2 dpkg-buildpackage: set CXXFLAGS to default value: -g -O2 dpkg-buildpackage: source package tigr-glimmer dpkg-buildpackage: source version 3.02-2 dpkg-buildpackage: host architecture amd64 /usr/bin/fakeroot debian/rules clean test -x debian/rules dh_testroot /usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="-Wl,-Bsymbolic-functions" -k clean make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02' make[1]: *** No rule to make target `clean'. make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-makefile-build /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02' if [ -d "." ]; then \ cd . && QUILT_PATCHES=/build/buildd/tigr-glimmer-3.02/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi No patch removed rm -rf ./.pc rm -f debian/stamp-patch* dh_clean dh_clean debian/glimmer2_mans/tigr-anomaly.1 debian/glimmer2_mans/tigr-build-icm.1 debian/glimmer2_mans/tigr-extract.1 debian/glimmer2_mans/tigr-glimmer3.1 debian/glimmer2_mans/tigr-long-orfs.1 debian/glimmer2_mans/tigr-run-glimmer3.1 cd src; make clean make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02/src' cd /build/buildd/tigr-glimmer-3.02/obj; rm -f cd /build/buildd/tigr-glimmer-3.02/lib; rm -f cd /build/buildd/tigr-glimmer-3.02/bin; rm -f rm -f * Make Target is clean ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Common clean ##### make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' cd /build/buildd/tigr-glimmer-3.02/obj; rm -f delcher.o fasta.o gene.o cd /build/buildd/tigr-glimmer-3.02/lib; rm -f libGLMcommon.a cd /build/buildd/tigr-glimmer-3.02/bin; rm -f rm -f delcher.d fasta.d gene.d make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/ICM clean ##### make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' cd /build/buildd/tigr-glimmer-3.02/obj; rm -f icm.o build-icm.o build-fixed.o score-fixed.o cd /build/buildd/tigr-glimmer-3.02/lib; rm -f libGLMicm.a cd /build/buildd/tigr-glimmer-3.02/bin; rm -f build-icm build-fixed score-fixed rm -f icm.d build-icm.d build-fixed.d score-fixed.d make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Glimmer clean ##### make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' cd /build/buildd/tigr-glimmer-3.02/obj; rm -f anomaly.o glimmer3.o long-orfs.o test.o cd /build/buildd/tigr-glimmer-3.02/lib; rm -f cd /build/buildd/tigr-glimmer-3.02/bin; rm -f anomaly glimmer3 long-orfs test rm -f anomaly.d glimmer3.d long-orfs.d test.d make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Util clean ##### make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' cd /build/buildd/tigr-glimmer-3.02/obj; rm -f entropy-profile.o entropy-score.o extract.o multi-extract.o start-codon-distrib.o uncovered.o window-acgt.o cd /build/buildd/tigr-glimmer-3.02/lib; rm -f cd /build/buildd/tigr-glimmer-3.02/bin; rm -f entropy-profile entropy-score extract multi-extract start-codon-distrib uncovered window-acgt rm -f entropy-profile.d entropy-score.d extract.d multi-extract.d start-codon-distrib.d uncovered.d window-acgt.d make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src' rm -f bin/* lib/* obj/* debian/rules build test -x debian/rules mkdir -p "." /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02' cd . && QUILT_PATCHES=/build/buildd/tigr-glimmer-3.02/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2 Applying patch 01_Makefile.patch patching file Makefile Applying patch 10_gcc4.3.patch patching file src/Common/delcher.cc patching file src/Common/fasta.cc patching file src/Common/gene.cc patching file src/Glimmer/anomaly.cc patching file src/ICM/icm.cc patching file src/Util/entropy-score.cc patching file src/Glimmer/glimmer3.cc patching file src/ICM/build-icm.cc patching file src/Util/extract.cc patching file src/Glimmer/glimmer2.cc patching file src/Glimmer/long-orfs.cc patching file src/ICM/build-fixed.cc patching file src/ICM/score-fixed.cc patching file src/Util/multi-extract.cc patching file src/Util/start-codon-distrib.cc patching file src/Util/uncovered.cc Applying patch 10_gcc4.4.patch patching file src/Common/gene.cc patching file src/ICM/icm.cc Now at patch 10_gcc4.4.patch touch debian/stamp-patched /usr/bin/make -f debian/rules update-config make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02' make[1]: Nothing to be done for `update-config'. make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02' /usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="-Wl,-Bsymbolic-functions" make[1]: Entering directory `/build/buildd/tigr-glimmer-3.02' cd src; make make[2]: Entering directory `/build/buildd/tigr-glimmer-3.02/src' * Make Target is all ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Common all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' @@@@@@@@@@@@@@@@@@@ delcher.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ fasta.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ gene.cc @@@@@@@@@@@@@@@@@@@@@ gene.cc: In member function 'void PWM_t::Print(FILE*)': gene.cc:264: warning: deprecated conversion from string constant to 'char*' gene.cc: In member function 'bool PWM_t::Read(FILE*)': gene.cc:319: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result gene.cc:332: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result gene.cc:335: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': gene.cc:848: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result ################### libGLMcommon.a ##################### ar: creating /build/buildd/tigr-glimmer-3.02/lib/libGLMcommon.a a - delcher.o a - fasta.o a - gene.o make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/ICM all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' @@@@@@@@@@@@@@@@@@@ icm.cc @@@@@@@@@@@@@@@@@@@@@ icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)': icm.cc:1491: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result icm.cc:1519: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result icm.cc: In member function 'void ICM_Training_t::Train_Model(const std::vector >&)': icm.cc:1344: warning: 'best_info' may be used uninitialized in this function icm.cc:1345: warning: 'max_pos' may be used uninitialized in this function @@@@@@@@@@@@@@@@@@@ build-icm.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ build-fixed.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ score-fixed.cc @@@@@@@@@@@@@@@@@@@@@ ################### libGLMicm.a ##################### ar: creating /build/buildd/tigr-glimmer-3.02/lib/libGLMicm.a a - icm.o a - build-icm.o a - build-fixed.o a - score-fixed.o ++++++++++++++++++++ build-icm ++++++++++++++++++++++ ++++++++++++++++++++ build-fixed ++++++++++++++++++++++ ++++++++++++++++++++ score-fixed ++++++++++++++++++++++ make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Glimmer all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' @@@@@@@@@@@@@@@@@@@ anomaly.cc @@@@@@@@@@@@@@@@@@@@@ anomaly.cc: In function 'int main(int, char**)': anomaly.cc:83: warning: suggest parentheses around '&&' within '||' @@@@@@@@@@@@@@@@@@@ glimmer3.cc @@@@@@@@@@@@@@@@@@@@@ glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': glimmer3.cc:2601: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result glimmer3.cc: In function 'void T.2355(FILE*)': glimmer3.cc:3399: warning: 'rev_start' may be used uninitialized in this function glimmer3.cc:3398: warning: 'prev_score' may be used uninitialized in this function glimmer3.cc: In function 'void Find_Orfs(std::vector >&)': glimmer3.cc:823: warning: 'ignore_ct' may be used uninitialized in this function glimmer3.cc:900: warning: 'orf_stop' may be used uninitialized in this function glimmer3.cc: In function 'double Olap_Score_Adjustment(int, int, int, int)': glimmer3.cc:1471: warning: 'fs' may be used uninitialized in this function glimmer3.cc: In function 'void Score_Orfs(std::vector >&, std::vector >&, FILE*)': glimmer3.cc:2842: warning: 'first_score' may be used uninitialized in this function @@@@@@@@@@@@@@@@@@@ long-orfs.cc @@@@@@@@@@@@@@@@@@@@@ long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': long-orfs.cc:1317: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result long-orfs.cc: In function 'void Find_Orfs(std::vector >&)': long-orfs.cc:590: warning: 'ignore_ct' may be used uninitialized in this function @@@@@@@@@@@@@@@@@@@ test.cc @@@@@@@@@@@@@@@@@@@@@ ++++++++++++++++++++ anomaly ++++++++++++++++++++++ ++++++++++++++++++++ glimmer3 ++++++++++++++++++++++ ++++++++++++++++++++ long-orfs ++++++++++++++++++++++ ++++++++++++++++++++ test ++++++++++++++++++++++ make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Util all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' @@@@@@@@@@@@@@@@@@@ entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@ entropy-profile.cc: In function 'int main(int, char**)': entropy-profile.cc:54: warning: 'seq' may be used uninitialized in this function @@@@@@@@@@@@@@@@@@@ entropy-score.cc @@@@@@@@@@@@@@@@@@@@@ entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': entropy-score.cc:327: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result @@@@@@@@@@@@@@@@@@@ extract.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ multi-extract.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ uncovered.cc @@@@@@@@@@@@@@@@@@@@@ @@@@@@@@@@@@@@@@@@@ window-acgt.cc @@@@@@@@@@@@@@@@@@@@@ ++++++++++++++++++++ entropy-profile ++++++++++++++++++++++ ++++++++++++++++++++ entropy-score ++++++++++++++++++++++ ++++++++++++++++++++ extract ++++++++++++++++++++++ ++++++++++++++++++++ multi-extract ++++++++++++++++++++++ ++++++++++++++++++++ start-codon-distrib ++++++++++++++++++++++ ++++++++++++++++++++ uncovered ++++++++++++++++++++++ ++++++++++++++++++++ window-acgt ++++++++++++++++++++++ make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' * Make Target is all ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Common all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/ICM all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Glimmer all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Util all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' * Make Target is all ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Common all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Common' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Common' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/ICM all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/ICM' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/ICM' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Glimmer all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Glimmer' ##### Making Directory /build/buildd/tigr-glimmer-3.02/src/Util all ##### make[3]: Entering directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src/Util' make[2]: Leaving directory `/build/buildd/tigr-glimmer-3.02/src' make[1]: Leaving directory `/build/buildd/tigr-glimmer-3.02' touch debian/stamp-makefile-build DEB_MAKE_CHECK_TARGET unset, not running checks docbook-to-man debian/glimmer2_mans/tigr-anomaly.sgml > debian/glimmer2_mans/tigr-anomaly.1 /usr/bin/nsgmls:debian/glimmer2_mans/tigr-anomaly.sgml:77:12:E: end tag for "REFSECT1" which is not finished /usr/bin/nsgmls:debian/glimmer2_mans/tigr-anomaly.sgml:77:12: open elements: REFENTRY REFSECT1[1] (TITLE[1]) docbook-to-man debian/glimmer2_mans/tigr-build-icm.sgml > debian/glimmer2_mans/tigr-build-icm.1 /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:51:17:E: document type does not allow element "TITLE" here /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:51:17: open elements: REFENTRY REFMETA[1] REFENTRYTITLE[1] (#PCDATA[1]) /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:53:15:E: document type does not allow element "MANVOLNUM" here /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:53:15: open elements: REFENTRY REFMETA[1] REFENTRYTITLE[1] TITLE[1] (#PCDATA[1]) /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:54:11:E: end tag for "TITLE" omitted, but OMITTAG NO was specified /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:51:17: start tag was here /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:54:11: open elements: REFENTRY REFMETA[1] REFENTRYTITLE[1] TITLE[1] (#PCDATA[1]) /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:54:11:E: end tag for "REFENTRYTITLE" omitted, but OMITTAG NO was specified /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:51:17: start tag was here /usr/bin/nsgmls:debian/glimmer2_mans/tigr-build-icm.sgml:54:11: open elements: REFENTRY REFMETA[1] REFENTRYTITLE[1] (#PCDATA[1]) Warning: transpec not found for TITLE docbook-to-man debian/glimmer2_mans/tigr-extract.sgml > debian/glimmer2_mans/tigr-extract.1 docbook-to-man debian/glimmer2_mans/tigr-glimmer3.sgml > debian/glimmer2_mans/tigr-glimmer3.1 docbook-to-man debian/glimmer2_mans/tigr-long-orfs.sgml > debian/glimmer2_mans/tigr-long-orfs.1 docbook-to-man debian/glimmer2_mans/tigr-run-glimmer3.sgml > debian/glimmer2_mans/tigr-run-glimmer3.1 /usr/bin/fakeroot debian/rules binary-arch test -x debian/rules dh_testroot dh_clean -k dh_installdirs -A mkdir -p "." DEB_MAKE_CHECK_TARGET unset, not running checks DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target dh_installdirs -ptigr-glimmer dh_installdocs -ptigr-glimmer dh_installexamples -ptigr-glimmer dh_installman -ptigr-glimmer dh_installinfo -ptigr-glimmer dh_installmenu -ptigr-glimmer dh_installcron -ptigr-glimmer dh_installinit -ptigr-glimmer dh_installdebconf -ptigr-glimmer dh_installemacsen -ptigr-glimmer dh_installcatalogs -ptigr-glimmer dh_installpam -ptigr-glimmer dh_installlogrotate -ptigr-glimmer dh_installlogcheck -ptigr-glimmer dh_installchangelogs -ptigr-glimmer dh_installudev -ptigr-glimmer dh_lintian -ptigr-glimmer dh_install -ptigr-glimmer dh_link -ptigr-glimmer dh_installmime -ptigr-glimmer dh_strip -ptigr-glimmer dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: tigr-glimmer dh_strip debug symbol extraction: packages to act on: tigr-glimmer dh_strip debug symbol extraction: ignored packages: WARNING: not running pkgbinarymangler for this package, as requested dpkg-deb: building package `tigr-glimmer-dbgsym' in `../tigr-glimmer-dbgsym_3.02-2_amd64.ddeb'. dh_compress -ptigr-glimmer dh_fixperms -ptigr-glimmer dh_makeshlibs -ptigr-glimmer dh_installdeb -ptigr-glimmer dh_perl -ptigr-glimmer dh_shlibdeps -ptigr-glimmer dh_gencontrol -ptigr-glimmer # symlink identical documentation to depending packages [ -n "$CDBS_NO_DOC_SYMLINKING" ] || \ [ -h debian/tigr-glimmer/usr/share/doc ] || \ [ ! -d debian/tigr-glimmer/usr/share/doc ] || \ for dep in `perl -ne 'if (/^(Pre-)?Depends:/) {s/^\w+://; foreach (split /,/) { split; print($_[0], "\n"); } }' debian/tigr-glimmer/DEBIAN/control`; do \ if [ -d debian/$dep/usr/share/doc ]; then \ echo "Searching for duplicated docs in dependency $dep..."; \ rootdir=`pwd`; \ (cd debian/tigr-glimmer/usr/share/doc/tigr-glimmer; find -type f ! -name copyright | while read f; do \ thisfile="$rootdir/debian/tigr-glimmer/usr/share/doc/tigr-glimmer/$f"; \ depfile="$rootdir/debian/$dep/usr/share/doc/$dep/$f"; \ if [ -f $depfile -o -L $depfile ] && zcmp $thisfile $depfile >/dev/null; then \ echo " symlinking $f in tigr-glimmer to file in $dep"; \ rm $thisfile; ln -s /usr/share/doc/$dep/$f $thisfile; \ fi; \ done ); \ fi; \ done # symlink identical Gnome help files within packages if [ -z "$CDBS_NO_GNOME_HELP_SYMLINKING" ] && [ -d debian/tigr-glimmer/usr/share/gnome/help ]; then \ cd debian/tigr-glimmer && LC_ALL=C fdupes -r1nq usr/share/gnome/help | while read s; do \ set -- $(echo $s | tr ' ' '\n' | sort); \ f=$1; shift; \ for d; do \ echo "symlinking duplicate Gnome help file $d to $f"; \ rm $d; ln -s /$f $d; \ done; \ done; \ fi dh_link -p tigr-glimmer dh_md5sums -ptigr-glimmer dh_builddeb -ptigr-glimmer pkgstriptranslations: processing control file: ./debian/tigr-glimmer/DEBIAN/control, package tigr-glimmer, directory ./debian/tigr-glimmer pkgstriptranslations: tigr-glimmer does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball pkgstriptranslations: static tarball already exists pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " dpkg-deb: warning: 'debian/tigr-glimmer/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `tigr-glimmer' in `../tigr-glimmer_3.02-2_amd64.deb'. dpkg-genchanges -B -mUbuntu/amd64 Build Daemon >../tigr-glimmer_3.02-2_amd64.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20100202-1202 Publishing debug debs. chroot-autobuild/build/buildd/tigr-glimmer_3.02-2_amd64.deb: new debian package, version 2.0. size 446476 bytes: control archive= 1634 bytes. 823 bytes, 18 lines control 2309 bytes, 32 lines md5sums Package: tigr-glimmer Version: 3.02-2 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 944 Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0) Section: science Priority: optional Homepage: http://www.cbcb.umd.edu/software/glimmer Description: Gene detection in archea and bacteria Developed by the TIGR institute this software detects coding sequences in bacteria and archea. . Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria and archaea. Glimmer (Gene Locator and Interpolated Markov Modeler) uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA. chroot-autobuild/build/buildd/tigr-glimmer_3.02-2_amd64.deb: drwxr-xr-x root/root 0 2010-02-02 12:02 ./ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/doc/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/ -rw-r--r-- root/root 2126 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/extract.readme -rw-r--r-- root/root 2670 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/build-icm.readme -rw-r--r-- root/root 2275 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/README.gz -rw-r--r-- root/root 2480 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/long-orfs.readme.gz -rw-r--r-- root/root 5006 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/glimmer2_docs/glimmer2.readme.gz -rw-r--r-- root/root 957 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/README.Debian -rw-r--r-- root/root 1109 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/copyright -rw-r--r-- root/root 131266 2006-06-12 20:46 ./usr/share/doc/tigr-glimmer/notes.pdf.gz -rw-r--r-- root/root 851 2010-02-02 12:02 ./usr/share/doc/tigr-glimmer/changelog.Debian.gz drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/man/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/share/man/man1/ -rw-r--r-- root/root 1399 2010-02-02 12:02 ./usr/share/man/man1/tigr-build-icm.1.gz -rw-r--r-- root/root 1148 2010-02-02 12:02 ./usr/share/man/man1/tigr-extract.1.gz -rw-r--r-- root/root 2340 2010-02-02 12:02 ./usr/share/man/man1/tigr-glimmer3.1.gz -rw-r--r-- root/root 2404 2010-02-02 12:02 ./usr/share/man/man1/tigr-long-orfs.1.gz -rw-r--r-- root/root 545 2010-02-02 12:02 ./usr/share/man/man1/tigr-run-glimmer3.1.gz -rw-r--r-- root/root 804 2010-02-02 12:02 ./usr/share/man/man1/tigr-glimmer.1.gz -rw-r--r-- root/root 472 2010-02-02 12:02 ./usr/share/man/man1/tigr-anomaly.1.gz drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/lib/ drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/lib/tigr-glimmer/ -rwxr-xr-x root/root 39584 2010-02-02 12:02 ./usr/lib/tigr-glimmer/anomaly -rwxr-xr-x root/root 64152 2010-02-02 12:02 ./usr/lib/tigr-glimmer/build-fixed -rwxr-xr-x root/root 64568 2010-02-02 12:02 ./usr/lib/tigr-glimmer/build-icm -rwxr-xr-x root/root 35552 2010-02-02 12:02 ./usr/lib/tigr-glimmer/entropy-profile -rwxr-xr-x root/root 40160 2010-02-02 12:02 ./usr/lib/tigr-glimmer/entropy-score -rwxr-xr-x root/root 35736 2010-02-02 12:02 ./usr/lib/tigr-glimmer/extract -rwxr-xr-x root/root 126808 2010-02-02 12:02 ./usr/lib/tigr-glimmer/glimmer3 -rwxr-xr-x root/root 65048 2010-02-02 12:02 ./usr/lib/tigr-glimmer/long-orfs -rwxr-xr-x root/root 39872 2010-02-02 12:02 ./usr/lib/tigr-glimmer/multi-extract -rwxr-xr-x root/root 60024 2010-02-02 12:02 ./usr/lib/tigr-glimmer/score-fixed -rwxr-xr-x root/root 39840 2010-02-02 12:02 ./usr/lib/tigr-glimmer/start-codon-distrib -rwxr-xr-x root/root 14768 2010-02-02 12:02 ./usr/lib/tigr-glimmer/test -rwxr-xr-x root/root 23288 2010-02-02 12:02 ./usr/lib/tigr-glimmer/uncovered -rwxr-xr-x root/root 19064 2010-02-02 12:02 ./usr/lib/tigr-glimmer/window-acgt drwxr-xr-x root/root 0 2010-02-02 12:02 ./usr/bin/ -rwxr-xr-x root/root 412 2010-02-02 12:02 ./usr/bin/tigr-glimmer -rwxr-xr-x root/root 686 2010-02-02 12:02 ./usr/bin/tigr-run-glimmer3 tigr-glimmer_3.02-2_amd64.changes: Format: 1.8 Date: Thu, 21 Jan 2010 22:52:45 +0100 Source: tigr-glimmer Binary: tigr-glimmer Architecture: amd64 Version: 3.02-2 Distribution: lucid Urgency: low Maintainer: Ubuntu/amd64 Build Daemon Changed-By: Andreas Tille Description: tigr-glimmer - Gene detection in archea and bacteria Closes: 560442 Changes: tigr-glimmer (3.02-2) unstable; urgency=low . * debian/control: - Fixed Vcs-Svn (missing svn/) - Updated Standards-Version to 3.8.1 (no changes needed) - Standards-Version: 3.8.3 (no changes needed) - debhelper (>= 7) * Fixed E-Mail address of upstream author in debian/copyright * Fix FTBFS on amd64 Closes: #560442 * Added README.source Checksums-Sha1: 291e96e2c5c8ead3d70412a7125122bc661e79c8 446476 tigr-glimmer_3.02-2_amd64.deb Checksums-Sha256: 8bfde1287ec9425de05ee60740377de63cdcfbec7ec7b1338651a3075db3e01a 446476 tigr-glimmer_3.02-2_amd64.deb Files: b0aff6bf11fabe525783e58b7d4feac5 446476 science optional tigr-glimmer_3.02-2_amd64.deb ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/tigr-glimmer-3.02 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --purge sp groff-base libglib2.0-0 m4 gettext file libhtml-parser-perl intltool libwww-perl liburi-perl sgml-data libhtml-tree-perl autotools-dev po-debconf docbook quilt libxml-parser-perl libcroco3 libhtml-tagset-perl libxml2 automake man-db intltool-debian xml-core cdbs diffstat html2text libsp1c2 gettext-base debhelper sgml-base libmagic1 libexpat1 bsdmainutils fdupes docbook-to-man libpcre3 autoconf (Reading database ... 15136 files and directories currently installed.) Removing quilt ... Purging configuration files for quilt ... Removing cdbs ... Removing diffstat ... Removing debhelper ... Removing fdupes ... Removing docbook-to-man ... Removing sp ... Removing intltool ... Removing po-debconf ... Removing docbook ... Purging configuration files for docbook ... Removing libxml-parser-perl ... Removing automake ... Removing man-db ... Purging configuration files for man-db ... Removing intltool-debian ... Removing html2text ... Purging configuration files for html2text ... Removing libsp1c2 ... Purging configuration files for libsp1c2 ... Removing libexpat1 ... Purging configuration files for libexpat1 ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing autoconf ... Purging configuration files for autoconf ... Removing groff-base ... Purging configuration files for groff-base ... Removing m4 ... Removing gettext ... Removing file ... Purging configuration files for file ... Removing libwww-perl ... Removing sgml-data ... Purging configuration files for sgml-data ... Removing libhtml-tree-perl ... Removing autotools-dev ... Removing libcroco3 ... Purging configuration files for libcroco3 ... Removing libxml2 ... Purging configuration files for libxml2 ... Removing xml-core ... Purging configuration files for xml-core ... dpkg: warning: while removing xml-core, directory '/etc/sgml' not empty so not removed. Removing gettext-base ... Removing sgml-base ... Purging configuration files for sgml-base ... Removing libmagic1 ... Purging configuration files for libmagic1 ... Removing libglib2.0-0 ... Purging configuration files for libglib2.0-0 ... Removing libhtml-parser-perl ... Removing liburi-perl ... Removing libhtml-tagset-perl ... Removing libpcre3 ... Purging configuration files for libpcre3 ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place ****************************************************************************** Finished at 20100202-1202 Build needed 00:00:43, 25776k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '1479218-3036760'] Scanning for processes to kill in build /home/buildd/build-1479218-3036760/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '1479218-3036760'] Unmounting chroot for build 1479218-3036760... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '1479218-3036760'] Removing build 1479218-3036760