RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '576680-1519690', '/home/buildd/filecache-default/a6bf56376b81c7fbe85ac303e41af6efa2b59c5f'] Synching the system clock with the buildd NTP service... 12 May 08:24:21 ntpdate[12546]: adjust time server 10.122.37.1 offset -0.000317 sec Unpacking chroot for build 576680-1519690 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '576680-1519690'] Mounting chroot for build 576680-1519690 RUN: /usr/share/launchpad-buildd/slavebin/apply-ogre-model ['apply-ogre-model', '576680-1519690', 'universe'] Attempting OGRE for universe in build-576680-1519690 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '576680-1519690', 'deb http://ftpmaster.internal/ubuntu intrepid main restricted universe'] Overriding sources.list in build-576680-1519690 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '576680-1519690'] Updating debian chroot for build 576680-1519690 Get:1 http://ftpmaster.internal intrepid Release.gpg [191B] Get:2 http://ftpmaster.internal intrepid Release [65.9kB] Get:3 http://ftpmaster.internal intrepid/main Packages [1172kB] Get:4 http://ftpmaster.internal intrepid/restricted Packages [2005B] Get:5 http://ftpmaster.internal intrepid/universe Packages [4319kB] Fetched 5558kB in 6s (855kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: cpp-4.3 g++-4.3 gcc-4.3 gcc-4.3-base libgmp3c2 libmpfr1ldbl libstdc++6-4.3-dev The following packages will be upgraded: apt base-files base-passwd bash binutils bsdutils ccache coreutils cpio cpp cpp-4.2 debconf debconf-english findutils g++ g++-4.2 gcc gcc-4.2 gcc-4.2-base grep gzip hostname lib64gcc1 libacl1 libattr1 libc6 libc6-dev libc6-dev-sparc64 libc6-sparc64 libgcc1 libgomp1 libslang2 libstdc++6 libstdc++6-4.2-dev make makedev mawk mount patch perl perl-base perl-modules python2.5-minimal sed tar util-linux zlib1g 47 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. Need to get 0B/48.8MB of archives. After unpacking 36.0MB of additional disk space will be used. (Reading database ... 9649 files and directories currently installed.) Preparing to replace mawk 1.3.3-11ubuntu2 (using .../mawk_1.3.3-11.1ubuntu1_sparc.deb) ... Unpacking replacement mawk ... Preparing to replace libc6-dev-sparc64 2.7-10ubuntu3 (using .../libc6-dev-sparc64_2.8~20080505-0ubuntu3_sparc.deb) ... Unpacking replacement libc6-dev-sparc64 ... Preparing to replace libc6-dev 2.7-10ubuntu3 (using .../libc6-dev_2.8~20080505-0ubuntu3_sparc.deb) ... Unpacking replacement libc6-dev ... Preparing to replace libc6-sparc64 2.7-10ubuntu3 (using .../libc6-sparc64_2.8~20080505-0ubuntu3_sparc.deb) ... Unpacking replacement libc6-sparc64 ... Selecting previously deselected package gcc-4.3-base. Unpacking gcc-4.3-base (from .../gcc-4.3-base_4.3.0-4ubuntu1_sparc.deb) ... Preparing to replace libgcc1 1:4.2.3-2ubuntu7 (using .../libgcc1_1%3a4.3.0-4ubuntu1_sparc.deb) ... Unpacking replacement libgcc1 ... Setting up gcc-4.3-base (4.3.0-4ubuntu1) ... Setting up libgcc1 (4.3.0-4ubuntu1) ... (Reading database ... 9663 files and directories currently installed.) Preparing to replace libc6 2.7-10ubuntu3 (using .../libc6_2.8~20080505-0ubuntu3_sparc.deb) ... Unpacking replacement libc6 ... Setting up libc6 (2.8~20080505-0ubuntu3) ... Installing new version of config file /etc/gai.conf ... (Reading database ... 9667 files and directories currently installed.) Preparing to replace base-passwd 3.5.16 (using .../base-passwd_3.5.17_sparc.deb) ... Unpacking replacement base-passwd ... Setting up base-passwd (3.5.17) ... (Reading database ... 9668 files and directories currently installed.) Preparing to replace base-files 4.0.1ubuntu5 (using .../base-files_4.0.1ubuntu6_sparc.deb) ... Unpacking replacement base-files ... Setting up mawk (1.3.3-11.1ubuntu1) ... Setting up base-files (4.0.1ubuntu6) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 9668 files and directories currently installed.) Preparing to replace bash 3.2-0ubuntu16 (using .../bash_3.2-3ubuntu1_sparc.deb) ... Unpacking replacement bash ... Setting up bash (3.2-3ubuntu1) ... Installing new version of config file /etc/skel/.bashrc ... Installing new version of config file /etc/skel/.profile ... (Reading database ... 9668 files and directories currently installed.) Preparing to replace coreutils 5.97-5.6ubuntu1 (using .../coreutils_6.10-3ubuntu2_sparc.deb) ... Unpacking replacement coreutils ... Setting up coreutils (6.10-3ubuntu2) ... (Reading database ... 9664 files and directories currently installed.) Preparing to replace findutils 4.2.32-1ubuntu2 (using .../findutils_4.4.0-2ubuntu1_sparc.deb) ... Unpacking replacement findutils ... Setting up findutils (4.4.0-2ubuntu1) ... (Reading database ... 9665 files and directories currently installed.) Preparing to replace grep 2.5.3~dfsg-3 (using .../grep_2.5.3~dfsg-5_sparc.deb) ... Unpacking replacement grep ... Setting up grep (2.5.3~dfsg-5) ... (Reading database ... 9665 files and directories currently installed.) Preparing to replace gzip 1.3.12-3.2 (using .../gzip_1.3.12-6_sparc.deb) ... Unpacking replacement gzip ... Setting up gzip (1.3.12-6) ... (Reading database ... 9665 files and directories currently installed.) Preparing to replace hostname 2.94 (using .../hostname_2.95_sparc.deb) ... Unpacking replacement hostname ... Setting up hostname (2.95) ... (Reading database ... 9666 files and directories currently installed.) Preparing to replace mount 2.13.1-5ubuntu1 (using .../mount_2.14~rc2-0ubuntu1_sparc.deb) ... Unpacking replacement mount ... Setting up mount (2.14~rc2-0ubuntu1) ... (Reading database ... 9666 files and directories currently installed.) Preparing to replace perl-modules 5.8.8-12 (using .../perl-modules_5.10.0-10_all.deb) ... Unpacking replacement perl-modules ... dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8/unicore': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8/Text': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8/Getopt': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8/File/Spec': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8/File': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/perl/5.8.8': Directory not empty Preparing to replace perl 5.8.8-12 (using .../perl_5.10.0-10_sparc.deb) ... Unpacking replacement perl ... dpkg: warning - unable to delete old directory `/usr/lib/perl/5.8.8/IO': Directory not empty dpkg: warning - unable to delete old directory `/usr/lib/perl/5.8.8/B': Directory not empty dpkg: warning - unable to delete old directory `/usr/lib/perl/5.8.8/auto/POSIX': Directory not empty dpkg: warning - unable to delete old directory `/usr/lib/perl/5.8.8/auto': Directory not empty dpkg: warning - unable to delete old directory `/usr/lib/perl/5.8.8': Directory not empty Preparing to replace perl-base 5.8.8-12 (using .../perl-base_5.10.0-10_sparc.deb) ... Unpacking replacement perl-base ... Setting up perl-base (5.10.0-10) ... (Reading database ... 9902 files and directories currently installed.) Preparing to replace sed 4.1.5-5 (using .../archives/sed_4.1.5-8_sparc.deb) ... Unpacking replacement sed ... Setting up sed (4.1.5-8) ... (Reading database ... 9902 files and directories currently installed.) Preparing to replace tar 1.19-3 (using .../archives/tar_1.20-1_sparc.deb) ... Unpacking replacement tar ... Setting up tar (1.20-1) ... (Reading database ... 9902 files and directories currently installed.) Preparing to replace util-linux 2.13.1-5ubuntu1 (using .../util-linux_2.14~rc2-0ubuntu1_sparc.deb) ... Unpacking replacement util-linux ... Setting up util-linux (2.14~rc2-0ubuntu1) ... (Reading database ... 9912 files and directories currently installed.) Preparing to replace bsdutils 1:2.13.1-5ubuntu1 (using .../bsdutils_1%3a2.14~rc2-0ubuntu1_sparc.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (2.14~rc2-0ubuntu1) ... (Reading database ... 9912 files and directories currently installed.) Preparing to replace debconf-english 1.5.20 (using .../debconf-english_1.5.21_all.deb) ... Unpacking replacement debconf-english ... Preparing to replace debconf 1.5.20 (using .../debconf_1.5.21_all.deb) ... Unpacking replacement debconf ... Preparing to replace libstdc++6 4.2.3-2ubuntu7 (using .../libstdc++6_4.3.0-4ubuntu1_sparc.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.3.0-4ubuntu1) ... (Reading database ... 9912 files and directories currently installed.) Preparing to replace apt 0.7.9ubuntu17 (using .../apt_0.7.14ubuntu2_sparc.deb) ... Unpacking replacement apt ... Setting up apt (0.7.14ubuntu2) ... Installing new version of config file /etc/apt/apt.conf.d/01ubuntu ... Installing new version of config file /etc/cron.daily/apt ... (Reading database ... 9912 files and directories currently installed.) Preparing to replace libattr1 1:2.4.39-1 (using .../libattr1_1%3a2.4.41-1_sparc.deb) ... Unpacking replacement libattr1 ... Preparing to replace libacl1 2.2.45-1 (using .../libacl1_2.2.47-2_sparc.deb) ... Unpacking replacement libacl1 ... Setting up libattr1 (2.4.41-1) ... Setting up libacl1 (2.2.47-2) ... (Reading database ... 9910 files and directories currently installed.) Preparing to replace zlib1g 1:1.2.3.3.dfsg-7ubuntu1 (using .../zlib1g_1%3a1.2.3.3.dfsg-12ubuntu1_sparc.deb) ... Unpacking replacement zlib1g ... Setting up zlib1g (1.2.3.3.dfsg-12ubuntu1) ... (Reading database ... 9910 files and directories currently installed.) Preparing to replace python2.5-minimal 2.5.2-2ubuntu4 (using .../python2.5-minimal_2.5.2-4ubuntu1_sparc.deb) ... Unpacking replacement python2.5-minimal ... Setting up python2.5-minimal (2.5.2-4ubuntu1) ... (Reading database ... 9910 files and directories currently installed.) Preparing to replace cpio 2.9-6ubuntu1 (using .../archives/cpio_2.9-13_sparc.deb) ... Unpacking replacement cpio ... Preparing to replace libslang2 2.1.3-2 (using .../libslang2_2.1.3-3_sparc.deb) ... Unpacking replacement libslang2 ... Preparing to replace makedev 2.3.1-84ubuntu1 (using .../makedev_2.3.1-88_all.deb) ... Removing obsolete conffile /etc/init.d/makedev ... Removing any system startup links for /etc/init.d/makedev ... /etc/rc1.d/K20makedev /etc/rc2.d/S20makedev /etc/rc3.d/S20makedev /etc/rc4.d/S20makedev /etc/rc5.d/S20makedev Unpacking replacement makedev ... Selecting previously deselected package libgmp3c2. Unpacking libgmp3c2 (from .../libgmp3c2_2%3a4.2.2+dfsg-1ubuntu2_sparc.deb) ... Selecting previously deselected package libmpfr1ldbl. Unpacking libmpfr1ldbl (from .../libmpfr1ldbl_2.3.1.dfsg.1-2ubuntu1_sparc.deb) ... Selecting previously deselected package cpp-4.3. Unpacking cpp-4.3 (from .../cpp-4.3_4.3.0-4ubuntu1_sparc.deb) ... Preparing to replace cpp 4:4.2.3-1ubuntu3 (using .../cpp_4%3a4.3.0-5ubuntu2_sparc.deb) ... Unpacking replacement cpp ... Preparing to replace binutils 2.18.1~cvs20080103-0ubuntu1 (using .../binutils_2.18.50.20080509-0ubuntu1_sparc.deb) ... Unpacking replacement binutils ... Preparing to replace ccache 2.4-11 (using .../ccache_2.4-15_sparc.deb) ... Unpacking replacement ccache ... Preparing to replace lib64gcc1 1:4.2.3-2ubuntu7 (using .../lib64gcc1_1%3a4.3.0-4ubuntu1_sparc.deb) ... Unpacking replacement lib64gcc1 ... Preparing to replace libgomp1 4.2.3-2ubuntu7 (using .../libgomp1_4.3.0-4ubuntu1_sparc.deb) ... Unpacking replacement libgomp1 ... Preparing to replace g++-4.2 4.2.3-2ubuntu7 (using .../g++-4.2_4.2.3-4ubuntu1_sparc.deb) ... Unpacking replacement g++-4.2 ... Preparing to replace libstdc++6-4.2-dev 4.2.3-2ubuntu7 (using .../libstdc++6-4.2-dev_4.2.3-4ubuntu1_sparc.deb) ... Unpacking replacement libstdc++6-4.2-dev ... Preparing to replace gcc-4.2 4.2.3-2ubuntu7 (using .../gcc-4.2_4.2.3-4ubuntu1_sparc.deb) ... Unpacking replacement gcc-4.2 ... Preparing to replace cpp-4.2 4.2.3-2ubuntu7 (using .../cpp-4.2_4.2.3-4ubuntu1_sparc.deb) ... Unpacking replacement cpp-4.2 ... Preparing to replace gcc-4.2-base 4.2.3-2ubuntu7 (using .../gcc-4.2-base_4.2.3-4ubuntu1_sparc.deb) ... Unpacking replacement gcc-4.2-base ... Selecting previously deselected package gcc-4.3. Unpacking gcc-4.3 (from .../gcc-4.3_4.3.0-4ubuntu1_sparc.deb) ... Selecting previously deselected package libstdc++6-4.3-dev. Unpacking libstdc++6-4.3-dev (from .../libstdc++6-4.3-dev_4.3.0-4ubuntu1_sparc.deb) ... Selecting previously deselected package g++-4.3. Unpacking g++-4.3 (from .../g++-4.3_4.3.0-4ubuntu1_sparc.deb) ... Preparing to replace gcc 4:4.2.3-1ubuntu3 (using .../gcc_4%3a4.3.0-5ubuntu2_sparc.deb) ... Removing old gcc doc directory. Unpacking replacement gcc ... Preparing to replace g++ 4:4.2.3-1ubuntu3 (using .../g++_4%3a4.3.0-5ubuntu2_sparc.deb) ... Unpacking replacement g++ ... Preparing to replace make 3.81-3build1 (using .../archives/make_3.81-4_sparc.deb) ... Unpacking replacement make ... Preparing to replace patch 2.5.9-4 (using .../patch_2.5.9-5_sparc.deb) ... Unpacking replacement patch ... Setting up libc6-dev (2.8~20080505-0ubuntu3) ... Setting up libc6-sparc64 (2.8~20080505-0ubuntu3) ... Setting up libc6-dev-sparc64 (2.8~20080505-0ubuntu3) ... Setting up cpio (2.9-13) ... Setting up libslang2 (2.1.3-3) ... Setting up makedev (2.3.1-88) ... Setting up libgmp3c2 (4.2.2+dfsg-1ubuntu2) ... Setting up libmpfr1ldbl (2.3.1.dfsg.1-2ubuntu1) ... Setting up cpp-4.3 (4.3.0-4ubuntu1) ... Setting up cpp (4.3.0-5ubuntu2) ... Setting up binutils (2.18.50.20080509-0ubuntu1) ... Setting up ccache (2.4-15) ... Setting up lib64gcc1 (4.3.0-4ubuntu1) ... Setting up libgomp1 (4.3.0-4ubuntu1) ... Setting up gcc-4.2-base (4.2.3-4ubuntu1) ... Setting up cpp-4.2 (4.2.3-4ubuntu1) ... Setting up gcc-4.2 (4.2.3-4ubuntu1) ... Setting up gcc-4.3 (4.3.0-4ubuntu1) ... Setting up gcc (4.3.0-5ubuntu2) ... Setting up make (3.81-4) ... Setting up patch (2.5.9-5) ... Setting up debconf-english (1.5.21) ... Setting up libstdc++6-4.3-dev (4.3.0-4ubuntu1) ... Setting up perl-modules (5.10.0-10) ... Setting up debconf (1.5.21) ... Setting up libstdc++6-4.2-dev (4.2.3-4ubuntu1) ... Setting up g++-4.2 (4.2.3-4ubuntu1) ... Setting up g++-4.3 (4.3.0-4ubuntu1) ... Setting up g++ (4.3.0-5ubuntu2) ... Setting up perl (5.10.0-10) ... modified: motd RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '576680-1519690', '--nolog', '--batch', '--archive=ubuntu', '--purpose=PRIMARY', '--dist=intrepid', '--comp=universe', 'biosquid_1.9g+cvs20050121-2.dsc'] Initiating build Automatic build of biosquid_1.9g+cvs20050121-2 on artigas by sbuild/sparc 1.170.5 Build started at 20080512-0825 ****************************************************************************** biosquid_1.9g+cvs20050121-2.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: autoconf, autotools-dev, cdbs, debhelper (>= 5) Checking for already installed source dependencies... autoconf: missing autotools-dev: missing cdbs: missing debhelper: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install autoconf autotools-dev cdbs debhelper Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-4.2 upstart-compat-sysv startup-tasks system-services libstdc++6-4.2-dev upstart Use 'apt-get autoremove' to remove them. The following extra packages will be installed: automake1.7 bsdmainutils fdupes file gettext gettext-base groff-base html2text ifupdown intltool intltool-debian libexpat1 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 liburi-perl libwww-perl libxml-parser-perl m4 man-db net-tools netbase po-debconf update-inetd Suggested packages: autobook autoconf-archive autoconf-doc autoconf2.13 gnu-standards libtool vacation wamerican wordlist whois devscripts doc-base dh-make cvs gettext-doc groff iproute dhcp3-client dhcp-client ppp libio-socket-ssl-perl less www-browser Recommended packages: automake automaken curl wget lynx libcompress-zlib-perl libhtml-format-perl libmailtools-perl libmail-box-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake1.7 autotools-dev bsdmainutils cdbs debhelper fdupes file gettext gettext-base groff-base html2text ifupdown intltool intltool-debian libexpat1 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 liburi-perl libwww-perl libxml-parser-perl m4 man-db net-tools netbase po-debconf update-inetd 0 upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 0B/8922kB of archives. After unpacking 29.9MB of additional disk space will be used. Selecting previously deselected package gettext-base. (Reading database ... 10688 files and directories currently installed.) Unpacking gettext-base (from .../gettext-base_0.17-2ubuntu1_sparc.deb) ... Selecting previously deselected package net-tools. Unpacking net-tools (from .../net-tools_1.60-19ubuntu1_sparc.deb) ... Selecting previously deselected package ifupdown. Unpacking ifupdown (from .../ifupdown_0.6.8ubuntu8_sparc.deb) ... Selecting previously deselected package update-inetd. Unpacking update-inetd (from .../update-inetd_4.30_all.deb) ... Selecting previously deselected package netbase. Unpacking netbase (from .../netbase_4.30ubuntu1_all.deb) ... Selecting previously deselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_6.1.10ubuntu2_sparc.deb) ... Selecting previously deselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_4.24-2_sparc.deb) ... Selecting previously deselected package file. Unpacking file (from .../archives/file_4.24-2_sparc.deb) ... Selecting previously deselected package groff-base. Unpacking groff-base (from .../groff-base_1.18.1.1-20_sparc.deb) ... Selecting previously deselected package libexpat1. Unpacking libexpat1 (from .../libexpat1_2.0.1-0ubuntu1_sparc.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 liburi-perl. Unpacking liburi-perl (from .../liburi-perl_1.35.dfsg.1-1_all.deb) ... Selecting previously deselected package libhtml-parser-perl. Unpacking libhtml-parser-perl (from .../libhtml-parser-perl_3.56-1build1_sparc.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_5.812-1_all.deb) ... Selecting previously deselected package libxml-parser-perl. Unpacking libxml-parser-perl (from .../libxml-parser-perl_2.36-1.1build1_sparc.deb) ... Selecting previously deselected package man-db. Unpacking man-db (from .../man-db_2.5.2-1_sparc.deb) ... Selecting previously deselected package m4. Unpacking m4 (from .../archives/m4_1.4.11-1_sparc.deb) ... Selecting previously deselected package autoconf. Unpacking autoconf (from .../autoconf_2.61-7_all.deb) ... Selecting previously deselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20080123.1_all.deb) ... Selecting previously deselected package automake1.7. Unpacking automake1.7 (from .../automake1.7_1.7.9-9_all.deb) ... Selecting previously deselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-3build2_sparc.deb) ... Selecting previously deselected package gettext. Unpacking gettext (from .../gettext_0.17-2ubuntu1_sparc.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_1.0.12.1_all.deb) ... Selecting previously deselected package debhelper. Unpacking debhelper (from .../debhelper_7.0.8ubuntu1_all.deb) ... Selecting previously deselected package fdupes. Unpacking fdupes (from .../fdupes_1.50-PR2-1_sparc.deb) ... Selecting previously deselected package intltool. Unpacking intltool (from .../intltool_0.37.1-1ubuntu1_all.deb) ... Selecting previously deselected package cdbs. Unpacking cdbs (from .../cdbs_0.4.52ubuntu1_all.deb) ... Setting up gettext-base (0.17-2ubuntu1) ... Setting up net-tools (1.60-19ubuntu1) ... Setting up ifupdown (0.6.8ubuntu8) ... ifupdown.postinst: Warning: No 'iface lo' definition found in /etc/network/interfaces ifupdown.postinst: Warning: No 'auto lo' statement found in /etc/network/interfaces Setting up update-inetd (4.30) ... Setting up netbase (4.30ubuntu1) ... Setting up bsdmainutils (6.1.10ubuntu2) ... Setting up libmagic1 (4.24-2) ... Setting up file (4.24-2) ... Setting up groff-base (1.18.1.1-20) ... Setting up libexpat1 (2.0.1-0ubuntu1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up liburi-perl (1.35.dfsg.1-1) ... Setting up libhtml-parser-perl (3.56-1build1) ... Setting up libhtml-tree-perl (3.23-1) ... Setting up libwww-perl (5.812-1) ... Setting up libxml-parser-perl (2.36-1.1build1) ... Setting up man-db (2.5.2-1) ... Building database of manual pages ... Setting up m4 (1.4.11-1) ... Setting up autoconf (2.61-7) ... Setting up autotools-dev (20080123.1) ... Setting up automake1.7 (1.7.9-9) ... Setting up html2text (1.3.2a-3build2) ... Setting up gettext (0.17-2ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.12.1) ... Setting up debhelper (7.0.8ubuntu1) ... Setting up fdupes (1.50-PR2-1) ... Setting up intltool (0.37.1-1ubuntu1) ... Setting up cdbs (0.4.52ubuntu1) ... modified: motd Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.8~20080505-0ubuntu3 make_3.81-4 dpkg-dev_1.14.16.6ubuntu3 gcc-4.3_4.3.0-4ubuntu1 g++-4.3_4.3.0-4ubuntu1 binutils_2.18.50.20080509-0ubuntu1 libstdc++6_4.3.0-4ubuntu1 libstdc++6-4.3-dev_4.3.0-4ubuntu1 ------------------------------------------------------------------------------ dpkg-source: extracting biosquid in biosquid-1.9g+cvs20050121 dpkg-source: unpacking biosquid_1.9g+cvs20050121.orig.tar.gz dpkg-source: applying /home/buildd/build-576680-1519690/biosquid_1.9g+cvs20050121-2.diff.gz dpkg-buildpackage: set CPPFLAGS to default value: dpkg-buildpackage: set CFLAGS to default value: -g -O2 dpkg-buildpackage: set CXXFLAGS to default value: -g -O2 dpkg-buildpackage: set FFLAGS to default value: -g -O2 dpkg-buildpackage: set LDFLAGS to default value: -Wl,-Bsymbolic-functions dpkg-buildpackage: source package biosquid dpkg-buildpackage: source version 1.9g+cvs20050121-2 dpkg-buildpackage: host architecture sparc /usr/bin/fakeroot debian/rules clean test -x debian/rules test "`id -u`" = 0 /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' for i in ./config.sub ; do \ if test -e $i.cdbs-orig ; then \ mv $i.cdbs-orig $i ; \ fi ; \ done make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi patches: debian/patches/Makefile.in.patch debian/patches/afetch.man.patch debian/patches/alistat.man.patch debian/patches/compstruct.man.patch debian/patches/seqstat.man.patch debian/patches/sfetch.man.patch debian/patches/shuffle.man.patch debian/patches/sindex.man.patch debian/patches/sreformat.man.patch Patch debian/patches/sreformat.man.patch is not applied. Patch debian/patches/sindex.man.patch is not applied. Patch debian/patches/shuffle.man.patch is not applied. Patch debian/patches/sfetch.man.patch is not applied. Patch debian/patches/seqstat.man.patch is not applied. Patch debian/patches/compstruct.man.patch is not applied. Patch debian/patches/alistat.man.patch is not applied. Patch debian/patches/afetch.man.patch is not applied. Patch debian/patches/Makefile.in.patch is not applied. if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi if [ "reverse-patches" != "reverse-patches" ] ; then \ /usr/bin/make -f debian/rules update-config ; \ fi for dir in debian/patches ; do \ rm -f $dir/*.log ; \ done for i in ./config.sub ; do \ if test -e $i.cdbs-orig ; then \ mv $i.cdbs-orig $i ; \ fi ; \ done /usr/bin/make -C . -k distclean make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' make[1]: *** No rule to make target `distclean'. make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-makefile-build rm -f debian/stamp-autotools-files dh_clean debian/rules build test -x debian/rules mkdir -p "." autoconf /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' for i in ./config.sub ; do \ if test -e $i.cdbs-orig ; then \ mv $i.cdbs-orig $i ; \ fi ; \ done make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi patches: debian/patches/Makefile.in.patch debian/patches/afetch.man.patch debian/patches/alistat.man.patch debian/patches/compstruct.man.patch debian/patches/seqstat.man.patch debian/patches/sfetch.man.patch debian/patches/shuffle.man.patch debian/patches/sindex.man.patch debian/patches/sreformat.man.patch Trying patch debian/patches/Makefile.in.patch at level 1 ... success. Trying patch debian/patches/afetch.man.patch at level 1 ... success. Trying patch debian/patches/alistat.man.patch at level 1 ... success. Trying patch debian/patches/compstruct.man.patch at level 1 ... success. Trying patch debian/patches/seqstat.man.patch at level 1 ... success. Trying patch debian/patches/sfetch.man.patch at level 1 ... success. Trying patch debian/patches/shuffle.man.patch at level 1 ... success. Trying patch debian/patches/sindex.man.patch at level 1 ... success. Trying patch debian/patches/sreformat.man.patch at level 1 ... success. if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi if [ "debian/stamp-patched" != "reverse-patches" ] ; then \ /usr/bin/make -f debian/rules update-config ; \ fi make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' if test -e /usr/share/misc/config.sub ; then \ for i in ./config.sub ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.sub $i ; \ fi ; \ done ; \ fi make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' if test -e /usr/share/misc/config.sub ; then \ for i in ./config.sub ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.sub $i ; \ fi ; \ done ; \ fi touch debian/stamp-autotools-files chmod a+x /build/buildd/biosquid-1.9g+cvs20050121/./configure cd . && CC="cc" CXX="g++" CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="-Wl,-Bsymbolic-functions" /build/buildd/biosquid-1.9g+cvs20050121/./configure --build=sparc-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/biosquid" --disable-maintainer-mode --disable-dependency-tracking --srcdir=. --enable-lfs configure: configuring the SQUID library for your system. checking for gcc... cc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether cc accepts -g... yes checking for cc option to accept ISO C89... none needed checking for ranlib... ranlib checking for ar... /usr/bin/ar checking whether your make is GNU make... yes, it is. checking how to run the C preprocessor... cc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking whether byte ordering is bigendian... yes checking for ntohs... yes checking for ntohl... yes checking for htons... yes checking for htonl... yes checking for unsigned short... yes checking size of unsigned short... 2 checking for unsigned int... yes checking size of unsigned int... 4 checking for unsigned long... yes checking size of unsigned long... 4 checking for unsigned long long... yes checking size of unsigned long long... 8 checking for strtoul... yes checking for strtoull... yes checking whether fpos_t is an arithmetic datatype... no. checking for strtoull... (cached) yes checking for ftello... yes checking for fseeko... yes checking for ftello64... yes checking for fseeko64... yes checking for ftell64... no checking for fseek64... no checking for stat64... yes checking for struct stat64... no! checking for off_t... yes checking size of off_t... 4 checking for off64_t... no checking size of off64_t... 0 checking for fpos_t... yes checking size of fpos_t... 12 configure: configured for optional LFS, large file support configure: creating ./config.status config.status: creating Makefile config.status: WARNING: Makefile.in seems to ignore the --datarootdir setting config.status: creating Testsuite/Makefile config.status: creating squid.h config.status: creating squidconf.h /usr/bin/make -C . make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c afetch_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c a2m.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c alignio.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c clustal.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c file.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c getopt.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c gki.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c hsregex.c hsregex.c: In function 'regbranch': hsregex.c:494: warning: 'flags' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c msa.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c msf.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c phylip.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c selex.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sqerror.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sqio.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c squidcore.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sre_ctype.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sre_random.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sre_string.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c ssi.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c stockholm.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c types.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c vectorops.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c aligneval.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c cluster.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c dayhoff.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c dirichlet.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c eps.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c iupac.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c revcomp.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c rk.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c seqencode.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c shuffle.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sre_math.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sre_stack.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c stopwatch.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c translate.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c weight.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c wuss.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c alistat_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c compalign_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c compstruct_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c revcomp_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c seqsplit_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c seqstat_main.c seqstat_main.c: In function 'main': seqstat_main.c:64: warning: 'gc' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sfetch_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c shuffle_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sindex_main.c sindex_main.c: In function 'main': sindex_main.c:49: warning: 'file' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c sreformat_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c translate_main.c cc -g -O2 -g -Wall -O2 -DHAVE_CONFIG_H -c weight_main.c cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o afetch afetch_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o alistat aligneval.o cluster.o sre_math.o sre_stack.o alistat_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o compalign aligneval.o compalign_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o compstruct sre_math.o sre_stack.o wuss.o compstruct_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o revcomp revcomp.o shuffle.o revcomp_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o seqsplit seqsplit_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o seqstat seqstat_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o sfetch revcomp.o shuffle.o sfetch_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o shuffle iupac.o shuffle.o shuffle_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o sindex sindex_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o sreformat eps.o shuffle.o sre_stack.o wuss.o sreformat_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o translate iupac.o revcomp.o shuffle.o sre_stack.o translate.o translate_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm cc -g -O2 -g -Wall -O2 -Wl,-Bsymbolic-functions -DHAVE_CONFIG_H -o weight aligneval.o cluster.o iupac.o sre_math.o sre_stack.o weight.o weight_main.o a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o -lm /usr/bin/ar rcv libsquid.a a2m.o alignio.o clustal.o file.o getopt.o gki.o hsregex.o msa.o msf.o phylip.o selex.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_random.o sre_string.o ssi.o stockholm.o types.o vectorops.o aligneval.o cluster.o dayhoff.o dirichlet.o eps.o iupac.o revcomp.o rk.o seqencode.o shuffle.o sre_math.o sre_stack.o stopwatch.o translate.o weight.o wuss.o a - a2m.o a - alignio.o a - clustal.o a - file.o a - getopt.o a - gki.o a - hsregex.o a - msa.o a - msf.o a - phylip.o a - selex.o a - sqerror.o a - sqio.o a - squidcore.o a - sre_ctype.o a - sre_random.o a - sre_string.o a - ssi.o a - stockholm.o a - types.o a - vectorops.o a - aligneval.o a - cluster.o a - dayhoff.o a - dirichlet.o a - eps.o a - iupac.o a - revcomp.o a - rk.o a - seqencode.o a - shuffle.o a - sre_math.o a - sre_stack.o a - stopwatch.o a - translate.o a - weight.o a - wuss.o ranlib libsquid.a chmod 644 libsquid.a make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' touch debian/stamp-makefile-build DEB_MAKE_CHECK_TARGET unset, not running checks /usr/bin/fakeroot debian/rules binary-arch test -x debian/rules test "`id -u`" = 0 dh_clean -k dh_installdirs -A mkdir -p "." autoconf if test -e /usr/share/misc/config.sub ; then \ for i in ./config.sub ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.sub $i ; \ fi ; \ done ; \ fi DEB_MAKE_CHECK_TARGET unset, not running checks /usr/bin/make -C . install prefix=/build/buildd/biosquid-1.9g+cvs20050121/debian/tmp make[1]: Entering directory `/build/buildd/biosquid-1.9g+cvs20050121' test -d /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/lib || mkdir -p /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/lib test -d /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin || mkdir -p /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin test -d /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin || mkdir -p /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin test -d /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/include|| mkdir -p /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/include test -d /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/share/man/man1 || mkdir -p /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/share/man/man1 cp libsquid.a /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/lib/ cp dirichlet.h rk.h sqfuncs.h gki.h msa.h sre_random.h sre_stack.h ssi.h stopwatch.h vectorops.h /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/include/ cp squid.h squidconf.h /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/include/ cp afetch alistat compalign compstruct revcomp seqsplit seqstat sfetch shuffle sindex sreformat translate weight /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin/ make[1]: Leaving directory `/build/buildd/biosquid-1.9g+cvs20050121' dh_installdirs -pbiosquid mv /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin/translate /build/buildd/biosquid-1.9g+cvs20050121/debian/tmp/bin/stranslate dh_installdirs -pbiosquid-dev dh_installdocs -pbiosquid dh_installexamples -pbiosquid dh_installman -pbiosquid dh_installinfo -pbiosquid dh_installmenu -pbiosquid dh_installcron -pbiosquid dh_installinit -pbiosquid dh_installdebconf -pbiosquid dh_installemacsen -pbiosquid dh_installcatalogs -pbiosquid dh_installpam -pbiosquid dh_installlogrotate -pbiosquid dh_installlogcheck -pbiosquid dh_installchangelogs -pbiosquid dh_installudev -pbiosquid dh_lintian -pbiosquid dh_install -pbiosquid dh_link -pbiosquid dh_installmime -pbiosquid dh_installdocs -pbiosquid-dev dh_installexamples -pbiosquid-dev dh_installman -pbiosquid-dev dh_installinfo -pbiosquid-dev dh_installmenu -pbiosquid-dev dh_installcron -pbiosquid-dev dh_installinit -pbiosquid-dev dh_installdebconf -pbiosquid-dev dh_installemacsen -pbiosquid-dev dh_installcatalogs -pbiosquid-dev dh_installpam -pbiosquid-dev dh_installlogrotate -pbiosquid-dev dh_installlogcheck -pbiosquid-dev dh_installchangelogs -pbiosquid-dev dh_installudev -pbiosquid-dev dh_lintian -pbiosquid-dev dh_install -pbiosquid-dev dh_link -pbiosquid-dev dh_installmime -pbiosquid-dev dh_strip -pbiosquid dh_strip debug symbol extraction: all non-arch-all packages for this build platform sparc: biosquid biosquid-dev dh_strip debug symbol extraction: packages to act on: biosquid dh_strip debug symbol extraction: ignored packages: pkgstriptranslations: processing control file: ./debian/biosquid-dbgsym/DEBIAN/control, package biosquid-dbgsym, directory ./debian/biosquid-dbgsym pkgstriptranslations: biosquid-dbgsym does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball pkgmaintainermangler: Maintainer field overridden to "Ubuntu MOTU Developers " warning, `/build/buildd/biosquid-1.9g+cvs20050121/debian/biosquid-dbgsym/DEBIAN/control' contains user-defined field `Original-Maintainer' dpkg-deb: ignoring 1 warnings about the control file(s) dpkg-deb: building package `biosquid-dbgsym' in `../biosquid-dbgsym_1.9g+cvs20050121-2_sparc.ddeb'. dh_compress -pbiosquid dh_fixperms -pbiosquid dh_makeshlibs -pbiosquid dh_strip -pbiosquid-dev dh_strip debug symbol extraction: all non-arch-all packages for this build platform sparc: biosquid biosquid-dev dh_strip debug symbol extraction: packages to act on: biosquid-dev dh_strip debug symbol extraction: ignored packages: dh_compress -pbiosquid-dev dh_fixperms -pbiosquid-dev dh_makeshlibs -pbiosquid-dev dh_installdeb -pbiosquid dh_perl -pbiosquid dh_shlibdeps -pbiosquid dh_installdeb -pbiosquid-dev dh_perl -pbiosquid-dev dh_shlibdeps -pbiosquid-dev dh_gencontrol -pbiosquid dpkg-gencontrol: warning: unknown substitution variable ${misc:Depends} # symlink identical documentation to depending packages [ -n "$CDBS_NO_DOC_SYMLINKING" ] || \ [ -h debian/biosquid/usr/share/doc ] || \ [ ! -d debian/biosquid/usr/share/doc ] || \ for dep in `perl -ne 'if (/^(Pre-)?Depends:/) {s/^\w+://; foreach (split /,/) { split; print($_[0], "\n"); } }' debian/biosquid/DEBIAN/control`; do \ if [ -d debian/$dep/usr/share/doc ]; then \ echo "Searching for duplicated docs in dependency $dep..."; \ rootdir=`pwd`; \ (cd debian/biosquid/usr/share/doc/biosquid; find -type f ! -name copyright | while read f; do \ thisfile="$rootdir/debian/biosquid/usr/share/doc/biosquid/$f"; \ depfile="$rootdir/debian/$dep/usr/share/doc/$dep/$f"; \ if [ -f $depfile -o -L $depfile ] && zcmp $thisfile $depfile >/dev/null; then \ echo " symlinking $f in biosquid 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/biosquid/usr/share/gnome/help ]; then \ cd debian/biosquid && 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 biosquid dh_md5sums -pbiosquid dh_builddeb -pbiosquid pkgstriptranslations: processing control file: ./debian/biosquid/DEBIAN/control, package biosquid, directory ./debian/biosquid pkgstriptranslations: biosquid does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball pkgmaintainermangler: Maintainer field overridden to "Ubuntu MOTU Developers " warning, `debian/biosquid/DEBIAN/control' contains user-defined field `Original-Maintainer' dpkg-deb: ignoring 1 warnings about the control file(s) dpkg-deb: building package `biosquid' in `../biosquid_1.9g+cvs20050121-2_sparc.deb'. dh_gencontrol -pbiosquid-dev dpkg-gencontrol: warning: unknown substitution variable ${shlibs:Depends} dpkg-gencontrol: warning: unknown substitution variable ${misc:Depends} # symlink identical documentation to depending packages [ -n "$CDBS_NO_DOC_SYMLINKING" ] || \ [ -h debian/biosquid-dev/usr/share/doc ] || \ [ ! -d debian/biosquid-dev/usr/share/doc ] || \ for dep in `perl -ne 'if (/^(Pre-)?Depends:/) {s/^\w+://; foreach (split /,/) { split; print($_[0], "\n"); } }' debian/biosquid-dev/DEBIAN/control`; do \ if [ -d debian/$dep/usr/share/doc ]; then \ echo "Searching for duplicated docs in dependency $dep..."; \ rootdir=`pwd`; \ (cd debian/biosquid-dev/usr/share/doc/biosquid-dev; find -type f ! -name copyright | while read f; do \ thisfile="$rootdir/debian/biosquid-dev/usr/share/doc/biosquid-dev/$f"; \ depfile="$rootdir/debian/$dep/usr/share/doc/$dep/$f"; \ if [ -f $depfile -o -L $depfile ] && zcmp $thisfile $depfile >/dev/null; then \ echo " symlinking $f in biosquid-dev 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/biosquid-dev/usr/share/gnome/help ]; then \ cd debian/biosquid-dev && 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 biosquid-dev dh_md5sums -pbiosquid-dev dh_builddeb -pbiosquid-dev pkgstriptranslations: processing control file: ./debian/biosquid/DEBIAN/control, package biosquid, directory ./debian/biosquid pkgstriptranslations: biosquid does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/biosquid-dev/DEBIAN/control, package biosquid-dev, directory ./debian/biosquid-dev pkgstriptranslations: biosquid-dev does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball pkgmaintainermangler: Maintainer field overridden to "Ubuntu MOTU Developers " warning, `debian/biosquid-dev/DEBIAN/control' contains user-defined field `Original-Maintainer' dpkg-deb: ignoring 1 warnings about the control file(s) dpkg-deb: building package `biosquid-dev' in `../biosquid-dev_1.9g+cvs20050121-2_sparc.deb'. dpkg-genchanges -B -mUbuntu/sparc Build Daemon >../biosquid_1.9g+cvs20050121-2_sparc.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 20080512-0827 Publishing debug debs. chroot-autobuild/build/buildd/biosquid_1.9g+cvs20050121-2_sparc.deb: new debian package, version 2.0. size 694842 bytes: control archive= 1532 bytes. 832 bytes, 19 lines control 1737 bytes, 29 lines md5sums Package: biosquid Version: 1.9g+cvs20050121-2 Architecture: sparc Maintainer: Ubuntu MOTU Developers Original-Maintainer: Debian-Med Packaging Team Installed-Size: 1508 Depends: libc6 (>= 2.7-1) Recommends: hmmer (>> 2.1.4) Conflicts: hmmer (<= 2.1.4) Section: science Priority: optional Homepage: http://selab.wustl.edu/cgi-bin/selab.pl?mode=software Description: utilities for biological sequence analysis SQUID is a library of C code functions for sequence analysis. It also includes a number of small utility programs to convert, show statistics, manipulate and do other functions on sequence files. . The original name of the package is "squid", but since there is already a squid on the archive (a proxy cache), it was renamed to "biosquid". chroot-autobuild/build/buildd/biosquid-dev_1.9g+cvs20050121-2_sparc.deb: new debian package, version 2.0. size 109150 bytes: control archive= 1168 bytes. 803 bytes, 18 lines control 1054 bytes, 16 lines md5sums Package: biosquid-dev Source: biosquid Version: 1.9g+cvs20050121-2 Architecture: sparc Maintainer: Ubuntu MOTU Developers Original-Maintainer: Debian-Med Packaging Team Installed-Size: 368 Suggests: biosquid Section: devel Priority: optional Homepage: http://selab.wustl.edu/cgi-bin/selab.pl?mode=software Description: headers and static library for biological sequence analysis SQUID is a library of C code functions for sequence analysis. It also includes a number of small utility programs to convert, show statistics, manipulate and do other functions on sequence files. . The original name of the package is "squid", but since there is already a squid on the archive (a proxy cache), it was renamed to "biosquid". chroot-autobuild/build/buildd/biosquid_1.9g+cvs20050121-2_sparc.deb: drwxr-xr-x root/root 0 2008-05-12 08:27:08 ./ drwxr-xr-x root/root 0 2008-05-12 08:27:10 ./usr/ drwxr-xr-x root/root 0 2008-05-12 08:27:07 ./usr/share/ drwxr-xr-x root/root 0 2008-05-12 08:27:07 ./usr/share/doc/ drwxr-xr-x root/root 0 2008-05-12 08:27:21 ./usr/share/doc/biosquid/ -rw-r--r-- root/root 529 2008-05-12 08:26:21 ./usr/share/doc/biosquid/README.Debian -rw-r--r-- root/root 2111 2008-05-12 08:26:21 ./usr/share/doc/biosquid/copyright -rw-r--r-- root/root 378 2008-05-12 08:26:21 ./usr/share/doc/biosquid/changelog.Debian.gz drwxr-xr-x root/root 0 2008-05-12 08:27:07 ./usr/share/man/ drwxr-xr-x root/root 0 2008-05-12 08:27:21 ./usr/share/man/man1/ -rw-r--r-- root/root 608 2008-05-12 08:27:08 ./usr/share/man/man1/revcomp.1.gz -rw-r--r-- root/root 982 2008-05-12 08:27:08 ./usr/share/man/man1/stranslate.1.gz -rw-r--r-- root/root 864 2008-05-12 08:27:08 ./usr/share/man/man1/weight.1.gz -rw-r--r-- root/root 940 2008-05-12 08:27:07 ./usr/share/man/man1/afetch.1.gz -rw-r--r-- root/root 1781 2008-05-12 08:27:07 ./usr/share/man/man1/alistat.1.gz -rw-r--r-- root/root 1806 2008-05-12 08:27:07 ./usr/share/man/man1/compstruct.1.gz -rw-r--r-- root/root 1242 2008-05-12 08:27:07 ./usr/share/man/man1/seqstat.1.gz -rw-r--r-- root/root 2124 2008-05-12 08:27:07 ./usr/share/man/man1/sfetch.1.gz -rw-r--r-- root/root 2154 2008-05-12 08:27:07 ./usr/share/man/man1/shuffle.1.gz -rw-r--r-- root/root 1490 2008-05-12 08:27:07 ./usr/share/man/man1/sindex.1.gz -rw-r--r-- root/root 1170 2008-05-12 08:27:08 ./usr/share/man/man1/compalign.1.gz -rw-r--r-- root/root 853 2008-05-12 08:27:08 ./usr/share/man/man1/seqsplit.1.gz -rw-r--r-- root/root 2930 2008-05-12 08:27:07 ./usr/share/man/man1/sreformat.1.gz drwxr-xr-x root/root 0 2008-05-12 08:27:21 ./usr/bin/ -rwxr-xr-x root/root 98248 2008-05-12 08:27:20 ./usr/bin/afetch -rwxr-xr-x root/root 110624 2008-05-12 08:27:20 ./usr/bin/alistat -rwxr-xr-x root/root 102124 2008-05-12 08:27:20 ./usr/bin/compalign -rwxr-xr-x root/root 103644 2008-05-12 08:27:20 ./usr/bin/compstruct -rwxr-xr-x root/root 101888 2008-05-12 08:27:20 ./usr/bin/revcomp -rwxr-xr-x root/root 102340 2008-05-12 08:27:20 ./usr/bin/seqsplit -rwxr-xr-x root/root 102152 2008-05-12 08:27:20 ./usr/bin/seqstat -rwxr-xr-x root/root 107016 2008-05-12 08:27:20 ./usr/bin/sfetch -rwxr-xr-x root/root 106448 2008-05-12 08:27:20 ./usr/bin/shuffle -rwxr-xr-x root/root 99120 2008-05-12 08:27:21 ./usr/bin/sindex -rwxr-xr-x root/root 111652 2008-05-12 08:27:21 ./usr/bin/sreformat -rwxr-xr-x root/root 113208 2008-05-12 08:27:21 ./usr/bin/weight -rwxr-xr-x root/root 106716 2008-05-12 08:27:21 ./usr/bin/stranslate chroot-autobuild/build/buildd/biosquid-dev_1.9g+cvs20050121-2_sparc.deb: drwxr-xr-x root/root 0 2008-05-12 08:27:12 ./ drwxr-xr-x root/root 0 2008-05-12 08:27:14 ./usr/ drwxr-xr-x root/root 0 2008-05-12 08:27:11 ./usr/share/ drwxr-xr-x root/root 0 2008-05-12 08:27:11 ./usr/share/doc/ drwxr-xr-x root/root 0 2008-05-12 08:27:22 ./usr/share/doc/biosquid-dev/ -rw-r--r-- root/root 232 2008-05-12 08:26:21 ./usr/share/doc/biosquid-dev/README.Debian -rw-r--r-- root/root 2111 2008-05-12 08:26:21 ./usr/share/doc/biosquid-dev/copyright -rw-r--r-- root/root 378 2008-05-12 08:26:21 ./usr/share/doc/biosquid-dev/changelog.Debian.gz drwxr-xr-x root/root 0 2008-05-12 08:27:14 ./usr/include/ drwxr-xr-x root/root 0 2008-05-12 08:27:14 ./usr/include/biosquid/ -rw-r--r-- root/root 1411 2008-05-12 08:27:07 ./usr/include/biosquid/dirichlet.h -rw-r--r-- root/root 1031 2008-05-12 08:27:07 ./usr/include/biosquid/gki.h -rw-r--r-- root/root 12284 2008-05-12 08:27:07 ./usr/include/biosquid/msa.h -rw-r--r-- root/root 915 2008-05-12 08:27:07 ./usr/include/biosquid/rk.h -rw-r--r-- root/root 10290 2008-05-12 08:27:07 ./usr/include/biosquid/sqfuncs.h -rw-r--r-- root/root 17553 2008-05-12 08:27:07 ./usr/include/biosquid/squid.h -rw-r--r-- root/root 4289 2008-05-12 08:27:07 ./usr/include/biosquid/squidconf.h -rw-r--r-- root/root 562 2008-05-12 08:27:07 ./usr/include/biosquid/sre_random.h -rw-r--r-- root/root 2357 2008-05-12 08:27:07 ./usr/include/biosquid/sre_stack.h -rw-r--r-- root/root 7348 2008-05-12 08:27:07 ./usr/include/biosquid/ssi.h -rw-r--r-- root/root 1704 2008-05-12 08:27:07 ./usr/include/biosquid/stopwatch.h -rw-r--r-- root/root 1517 2008-05-12 08:27:07 ./usr/include/biosquid/vectorops.h drwxr-xr-x root/root 0 2008-05-12 08:27:21 ./usr/lib/ -rw-r--r-- root/root 230244 2008-05-12 08:27:21 ./usr/lib/libsquid.a biosquid_1.9g+cvs20050121-2_sparc.changes: Format: 1.7 Date: Thu, 21 Feb 2008 22:41:01 -0300 Source: biosquid Binary: biosquid biosquid-dev Architecture: sparc Version: 1.9g+cvs20050121-2 Distribution: intrepid Urgency: low Maintainer: Ubuntu/sparc Build Daemon Changed-By: Nelson A. de Oliveira Description: biosquid - utilities for biological sequence analysis biosquid-dev - headers and static library for biological sequence analysis Closes: 453579 466005 Changes: biosquid (1.9g+cvs20050121-2) unstable; urgency=low . [ Andreas Tille ] * Use Homepage tag control field instead of putting it into long description (Closes: #466005). . [ Nelson A. de Oliveira ] * Update watch file (Closes: #453579); * Updated Standards-Version; * Changed Maintainer to the Debian-Med Packaging Team; * Added Vcs-* fields. Files: 751523eddbabc6522d690abcd8006734 694842 science optional biosquid_1.9g+cvs20050121-2_sparc.deb 40474879823e726a07df0ad74e073715 109150 devel optional biosquid-dev_1.9g+cvs20050121-2_sparc.deb ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/biosquid-1.9g+cvs20050121 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --root=/home/buildd/build-576680-1519690/chroot-autobuild --purge intltool-debian groff-base m4 gettext file libhtml-parser-perl intltool automake1.7 cdbs libwww-perl liburi-perl html2text gettext-base debhelper libhtml-tree-perl ifupdown autotools-dev po-debconf net-tools libxml-parser-perl libmagic1 libhtml-tagset-perl libexpat1 netbase bsdmainutils fdupes update-inetd man-db autoconf (Reading database ... 12407 files and directories currently installed.) Removing cdbs ... Removing debhelper ... Removing po-debconf ... Removing fdupes ... Removing man-db ... Purging configuration files for man-db ... Removing catpages as well as /var/cache/man hierarchy. Removing intltool-debian ... Removing groff-base ... Purging configuration files for groff-base ... Removing intltool ... Removing automake1.7 ... Removing html2text ... Purging configuration files for html2text ... Removing autotools-dev ... Removing libxml-parser-perl ... Removing libexpat1 ... Purging configuration files for libexpat1 ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing autoconf ... Purging configuration files for autoconf ... Removing m4 ... Removing gettext ... Removing file ... Purging configuration files for file ... Removing libwww-perl ... Removing gettext-base ... Removing libhtml-tree-perl ... Removing libmagic1 ... Purging configuration files for libmagic1 ... Removing netbase ... Purging configuration files for netbase ... Removing update-inetd ... Purging configuration files for update-inetd ... Removing libhtml-parser-perl ... Removing liburi-perl ... Removing ifupdown ... Purging configuration files for ifupdown ... Removing net-tools ... Removing libhtml-tagset-perl ... ****************************************************************************** Finished at 20080512-0827 Build needed 00:01:16, 14524k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '576680-1519690'] Scanning for processes to kill in build 576680-1519690... Scanning for processes to kill in build /home/buildd/build-576680-1519690/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '576680-1519690'] Unmounting chroot for build 576680-1519690... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '576680-1519690'] Removing build 576680-1519690