RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '586106-1492469', '/home/buildd/filecache-default/5b48b4925ac5d27f0118ad6259356568d0e0899a'] Synching the system clock with the buildd NTP service... 16 May 09:19:57 ntpdate[2243]: adjust time server 10.122.37.1 offset 0.006480 sec Unpacking chroot for build 586106-1492469 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '586106-1492469'] Mounting chroot for build 586106-1492469 RUN: /usr/share/launchpad-buildd/slavebin/apply-ogre-model ['apply-ogre-model', '586106-1492469', 'universe'] Attempting OGRE for universe in build-586106-1492469 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '586106-1492469', 'deb http://ftpmaster.internal/ubuntu intrepid main restricted universe'] Overriding sources.list in build-586106-1492469 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '586106-1492469'] Updating debian chroot for build 586106-1492469 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 [1152kB] Get:4 http://ftpmaster.internal intrepid/restricted Packages [1732B] Get:5 http://ftpmaster.internal intrepid/universe Packages [4196kB] Fetched 5416kB in 13s (396kB/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 have been kept back: perl-modules The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-hppa64 bsdutils ccache cpio cpp cpp-4.2 debconf debconf-i18n findutils g++ g++-4.2 gcc gcc-4.2 gcc-4.2-base grep gzip hostname libacl1 libattr1 libgcc4 libgomp1 liblocale-gettext-perl libpam-modules libpam-runtime libpam0g libslang2 libstdc++6 libstdc++6-4.2-dev libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl make makedev mawk mount patch python2.5-minimal sed util-linux zlib1g 45 upgraded, 7 newly installed, 0 to remove and 1 not upgraded. Need to get 0B/26.3MB of archives. After unpacking 25.1MB of additional disk space will be used. (Reading database ... 9528 files and directories currently installed.) Preparing to replace mawk 1.3.3-11ubuntu2 (using .../mawk_1.3.3-11.1ubuntu1_hppa.deb) ... Unpacking replacement mawk ... Preparing to replace base-passwd 3.5.16 (using .../base-passwd_3.5.17_hppa.deb) ... Unpacking replacement base-passwd ... Setting up base-passwd (3.5.17) ... (Reading database ... 9529 files and directories currently installed.) Preparing to replace liblocale-gettext-perl 1.05-2ubuntu1 (using .../liblocale-gettext-perl_1.05-4_hppa.deb) ... Unpacking replacement liblocale-gettext-perl ... Preparing to replace libtext-charwidth-perl 0.04-4build1 (using .../libtext-charwidth-perl_0.04-5_hppa.deb) ... Unpacking replacement libtext-charwidth-perl ... Preparing to replace libtext-iconv-perl 1.4-3 (using .../libtext-iconv-perl_1.7-1_hppa.deb) ... Unpacking replacement libtext-iconv-perl ... Preparing to replace libtext-wrapi18n-perl 0.06-5 (using .../libtext-wrapi18n-perl_0.06-6_all.deb) ... Unpacking replacement libtext-wrapi18n-perl ... Preparing to replace debconf-i18n 1.5.20 (using .../debconf-i18n_1.5.21_all.deb) ... Unpacking replacement debconf-i18n ... Preparing to replace debconf 1.5.20 (using .../debconf_1.5.21_all.deb) ... Unpacking replacement debconf ... Preparing to replace libpam-runtime 0.99.7.1-5ubuntu6 (using .../libpam-runtime_0.99.7.1-5ubuntu7_all.deb) ... Unpacking replacement libpam-runtime ... Setting up libpam-runtime (0.99.7.1-5ubuntu7) ... (Reading database ... 9529 files and directories currently installed.) Preparing to replace libpam0g 0.99.7.1-5ubuntu6 (using .../libpam0g_0.99.7.1-5ubuntu7_hppa.deb) ... Unpacking replacement libpam0g ... Setting up liblocale-gettext-perl (1.05-4) ... Setting up libtext-charwidth-perl (0.04-5) ... Setting up libtext-iconv-perl (1.7-1) ... Setting up libtext-wrapi18n-perl (0.06-6) ... Setting up debconf-i18n (1.5.21) ... Setting up debconf (1.5.21) ... Setting up libpam0g (0.99.7.1-5ubuntu7) ... (Reading database ... 9529 files and directories currently installed.) Preparing to replace libpam-modules 0.99.7.1-5ubuntu6 (using .../libpam-modules_0.99.7.1-5ubuntu7_hppa.deb) ... Unpacking replacement libpam-modules ... Setting up libpam-modules (0.99.7.1-5ubuntu7) ... (Reading database ... 9529 files and directories currently installed.) Preparing to replace base-files 4.0.1ubuntu5 (using .../base-files_4.0.1ubuntu6_hppa.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 ... 9529 files and directories currently installed.) Preparing to replace bash 3.2-0ubuntu16 (using .../bash_3.2-4ubuntu1_hppa.deb) ... Unpacking replacement bash ... Setting up bash (3.2-4ubuntu1) ... Installing new version of config file /etc/skel/.bashrc ... Installing new version of config file /etc/skel/.profile ... (Reading database ... 9529 files and directories currently installed.) Preparing to replace findutils 4.2.32-1ubuntu2 (using .../findutils_4.4.0-2ubuntu1_hppa.deb) ... Unpacking replacement findutils ... Setting up findutils (4.4.0-2ubuntu1) ... (Reading database ... 9530 files and directories currently installed.) Preparing to replace grep 2.5.3~dfsg-3 (using .../grep_2.5.3~dfsg-5_hppa.deb) ... Unpacking replacement grep ... dpkg: warning - unable to delete old directory `/usr/share/locale/sr/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/sr': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/no/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/hr/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/hr': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/ga/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/et/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/eo/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/eo': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/be/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/af/LC_MESSAGES': Directory not empty Setting up grep (2.5.3~dfsg-5) ... (Reading database ... 9491 files and directories currently installed.) Preparing to replace gzip 1.3.12-3.2 (using .../gzip_1.3.12-6_hppa.deb) ... Unpacking replacement gzip ... Setting up gzip (1.3.12-6) ... (Reading database ... 9491 files and directories currently installed.) Preparing to replace hostname 2.94 (using .../hostname_2.95_hppa.deb) ... Unpacking replacement hostname ... Setting up hostname (2.95) ... (Reading database ... 9492 files and directories currently installed.) Preparing to replace mount 2.13.1-5ubuntu1 (using .../mount_2.14~rc2-0ubuntu1_hppa.deb) ... Unpacking replacement mount ... Setting up mount (2.14~rc2-0ubuntu1) ... (Reading database ... 9492 files and directories currently installed.) Preparing to replace sed 4.1.5-5 (using .../archives/sed_4.1.5-8_hppa.deb) ... Unpacking replacement sed ... dpkg: warning - unable to delete old directory `/usr/share/locale/hr/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/hr': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/ga/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/et/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/eo/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/eo': Directory not empty Setting up sed (4.1.5-8) ... (Reading database ... 9458 files and directories currently installed.) Preparing to replace util-linux 2.13.1-5ubuntu1 (using .../util-linux_2.14~rc2-0ubuntu1_hppa.deb) ... Unpacking replacement util-linux ... Setting up util-linux (2.14~rc2-0ubuntu1) ... (Reading database ... 9468 files and directories currently installed.) Preparing to replace bsdutils 1:2.13.1-5ubuntu1 (using .../bsdutils_1%3a2.14~rc2-0ubuntu1_hppa.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (2.14~rc2-0ubuntu1) ... Selecting previously deselected package gcc-4.3-base. (Reading database ... 9468 files and directories currently installed.) Unpacking gcc-4.3-base (from .../gcc-4.3-base_4.3.0-4ubuntu1_hppa.deb) ... Preparing to replace libgcc4 4.2.3-2ubuntu7 (using .../libgcc4_4.3.0-4ubuntu1_hppa.deb) ... Unpacking replacement libgcc4 ... Setting up gcc-4.3-base (4.3.0-4ubuntu1) ... Setting up libgcc4 (4.3.0-4ubuntu1) ... (Reading database ... 9473 files and directories currently installed.) Preparing to replace libstdc++6 4.2.3-2ubuntu7 (using .../libstdc++6_4.3.0-4ubuntu1_hppa.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.3.0-4ubuntu1) ... (Reading database ... 9473 files and directories currently installed.) Preparing to replace apt 0.7.9ubuntu17 (using .../apt_0.7.14ubuntu2_hppa.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 ... 9473 files and directories currently installed.) Preparing to replace libattr1 1:2.4.39-1 (using .../libattr1_1%3a2.4.41-1_hppa.deb) ... Unpacking replacement libattr1 ... Preparing to replace libacl1 2.2.45-1 (using .../libacl1_2.2.47-2_hppa.deb) ... Unpacking replacement libacl1 ... Setting up libattr1 (2.4.41-1) ... Setting up libacl1 (2.2.47-2) ... (Reading database ... 9471 files and directories currently installed.) Preparing to replace libslang2 2.1.3-2 (using .../libslang2_2.1.3-3_hppa.deb) ... Unpacking replacement libslang2 ... Setting up libslang2 (2.1.3-3) ... (Reading database ... 9471 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_hppa.deb) ... Unpacking replacement zlib1g ... Setting up zlib1g (1.2.3.3.dfsg-12ubuntu1) ... (Reading database ... 9471 files and directories currently installed.) Preparing to replace python2.5-minimal 2.5.2-2ubuntu3 (using .../python2.5-minimal_2.5.2-5ubuntu1_hppa.deb) ... Unpacking replacement python2.5-minimal ... Setting up python2.5-minimal (2.5.2-5ubuntu1) ... (Reading database ... 9471 files and directories currently installed.) Preparing to replace cpio 2.9-6ubuntu1 (using .../archives/cpio_2.9-13_hppa.deb) ... Unpacking replacement cpio ... dpkg: warning - unable to delete old directory `/usr/share/locale/rw/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/ga/LC_MESSAGES': Directory not empty 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_hppa.deb) ... Selecting previously deselected package libmpfr1ldbl. Unpacking libmpfr1ldbl (from .../libmpfr1ldbl_2.3.1.dfsg.1-2ubuntu1_hppa.deb) ... Selecting previously deselected package cpp-4.3. Unpacking cpp-4.3 (from .../cpp-4.3_4.3.0-4ubuntu1_hppa.deb) ... Preparing to replace cpp 4:4.2.3-1ubuntu3 (using .../cpp_4%3a4.3.0-5ubuntu2_hppa.deb) ... Unpacking replacement cpp ... Preparing to replace binutils 2.18.1~cvs20080103-0ubuntu1 (using .../binutils_2.18.50.20080509-0ubuntu1_hppa.deb) ... Unpacking replacement binutils ... dpkg: warning - unable to delete old directory `/usr/share/locale/ms/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/ga/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw': Directory not empty Preparing to replace binutils-hppa64 2.18.1~cvs20080103-0ubuntu1 (using .../binutils-hppa64_2.18.50.20080509-0ubuntu1_hppa.deb) ... Unpacking replacement binutils-hppa64 ... Preparing to replace ccache 2.4-11 (using .../ccache_2.4-15_hppa.deb) ... Unpacking replacement ccache ... Preparing to replace libgomp1 4.2.3-2ubuntu7 (using .../libgomp1_4.3.0-4ubuntu1_hppa.deb) ... Unpacking replacement libgomp1 ... Preparing to replace g++-4.2 4.2.3-2ubuntu7 (using .../g++-4.2_4.2.3-4ubuntu1_hppa.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_hppa.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_hppa.deb) ... Unpacking replacement gcc-4.2 ... Preparing to replace cpp-4.2 4.2.3-2ubuntu7 (using .../cpp-4.2_4.2.3-4ubuntu1_hppa.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_hppa.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_hppa.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_hppa.deb) ... Selecting previously deselected package g++-4.3. Unpacking g++-4.3 (from .../g++-4.3_4.3.0-4ubuntu1_hppa.deb) ... Preparing to replace gcc 4:4.2.3-1ubuntu3 (using .../gcc_4%3a4.3.0-5ubuntu2_hppa.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_hppa.deb) ... Unpacking replacement g++ ... Preparing to replace make 3.81-3build1 (using .../archives/make_3.81-4_hppa.deb) ... Unpacking replacement make ... dpkg: warning - unable to delete old directory `/usr/share/locale/rw/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/rw': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/hr/LC_MESSAGES': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/hr': Directory not empty dpkg: warning - unable to delete old directory `/usr/share/locale/ga/LC_MESSAGES': Directory not empty Preparing to replace patch 2.5.9-4 (using .../patch_2.5.9-5_hppa.deb) ... Unpacking replacement patch ... Setting up cpio (2.9-13) ... Setting up makedev (2.3.1-88) ... /bin/ls: /dev/ttyp0: Operation not supported /bin/ls: /dev/ttyq0: Operation not supported /bin/ls: /dev/ttyr0: Operation not supported /bin/ls: /dev/ttys0: Operation not supported /bin/ls: /dev/ttyt0: Operation not supported /bin/ls: /dev/ttyu0: Operation not supported /bin/ls: /dev/ttyv0: Operation not supported /bin/ls: /dev/ttyw0: Operation not supported /bin/ls: /dev/ttyx0: Operation not supported /bin/ls: /dev/ttyy0: Operation not supported /bin/ls: /dev/ttyz0: Operation not supported /bin/ls: /dev/ttya0: Operation not supported /bin/ls: /dev/ttyb0: Operation not supported /bin/ls: /dev/ttyc0: Operation not supported /bin/ls: /dev/ttyd0: Operation not supported /bin/ls: /dev/ttye0: Operation not supported /bin/ls: /dev/ptyp0: Operation not supported /bin/ls: /dev/ptyq0: Operation not supported /bin/ls: /dev/ptyr0: Operation not supported /bin/ls: /dev/ptys0: Operation not supported /bin/ls: /dev/ptyt0: Operation not supported /bin/ls: /dev/ptyu0: Operation not supported /bin/ls: /dev/ptyv0: Operation not supported /bin/ls: /dev/ptyw0: Operation not supported /bin/ls: /dev/ptyx0: Operation not supported /bin/ls: /dev/ptyy0: Operation not supported /bin/ls: /dev/ptyz0: Operation not supported /bin/ls: /dev/ptya0: Operation not supported /bin/ls: /dev/ptyb0: Operation not supported /bin/ls: /dev/ptyc0: Operation not supported /bin/ls: /dev/ptyd0: Operation not supported /bin/ls: /dev/ptye0: Operation not supported 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 binutils-hppa64 (2.18.50.20080509-0ubuntu1) ... Setting up ccache (2.4-15) ... 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 g++-4.2 (4.2.3-4ubuntu1) ... Setting up libstdc++6-4.3-dev (4.3.0-4ubuntu1) ... Setting up libstdc++6-4.2-dev (4.2.3-4ubuntu1) ... Setting up g++-4.3 (4.3.0-4ubuntu1) ... Setting up g++ (4.3.0-5ubuntu2) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '586106-1492469', '--nolog', '--batch', '--archive=ubuntu', '--purpose=PRIMARY', '--dist=intrepid', '--comp=universe', 'loki_2.4.7.4-4.dsc'] Initiating build Automatic build of loki_2.4.7.4-4 on kohnen by sbuild/hppa 1.170.5 Build started at 20080516-0921 ****************************************************************************** loki_2.4.7.4-4.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: cdbs, debhelper (>= 5.0), quilt Checking for already installed source dependencies... cdbs: missing debhelper: missing quilt: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install cdbs debhelper quilt Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-4.2 binutils-hppa64 libstdc++6-4.2-dev Use 'apt-get autoremove' to remove them. The following extra packages will be installed: autoconf automake1.7 autotools-dev bsdmainutils diffstat 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 procmail graphviz 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 diffstat 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 quilt update-inetd 0 upgraded, 31 newly installed, 0 to remove and 1 not upgraded. Need to get 0B/10.5MB of archives. After unpacking 31.3MB of additional disk space will be used. Selecting previously deselected package gettext-base. (Reading database ... 10115 files and directories currently installed.) Unpacking gettext-base (from .../gettext-base_0.17-2ubuntu1_hppa.deb) ... Selecting previously deselected package net-tools. Unpacking net-tools (from .../net-tools_1.60-19ubuntu1_hppa.deb) ... Selecting previously deselected package ifupdown. Unpacking ifupdown (from .../ifupdown_0.6.8ubuntu8_hppa.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_hppa.deb) ... Selecting previously deselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_4.24-2_hppa.deb) ... Selecting previously deselected package file. Unpacking file (from .../archives/file_4.24-2_hppa.deb) ... Selecting previously deselected package groff-base. Unpacking groff-base (from .../groff-base_1.18.1.1-20_hppa.deb) ... Selecting previously deselected package libexpat1. Unpacking libexpat1 (from .../libexpat1_2.0.1-0ubuntu1_hppa.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_3.56-1_hppa.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_hppa.deb) ... Selecting previously deselected package man-db. Unpacking man-db (from .../man-db_2.5.2-1_hppa.deb) ... Selecting previously deselected package m4. Unpacking m4 (from .../archives/m4_1.4.11-1_hppa.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_hppa.deb) ... Selecting previously deselected package gettext. Unpacking gettext (from .../gettext_0.17-2ubuntu1_hppa.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_hppa.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) ... Selecting previously deselected package diffstat. Unpacking diffstat (from .../diffstat_1.45-2_hppa.deb) ... Selecting previously deselected package quilt. Unpacking quilt (from .../archives/quilt_0.46-4_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 (3.56-1) ... 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) ... Setting up diffstat (1.45-2) ... Setting up quilt (0.46-4) ... Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.6.1-6ubuntu2 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 loki in loki-2.4.7.4 dpkg-source: unpacking loki_2.4.7.4.orig.tar.gz dpkg-source: applying /home/buildd/build-586106-1492469/loki_2.4.7.4-4.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 loki dpkg-buildpackage: source version 2.4.7.4-4 dpkg-buildpackage: host architecture hppa /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/loki-2.4.7.4' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' if [ -d "." ] ; then \ cd . && QUILT_PATCHES=patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi No patch removed if [ -n "patches" ] ; then \ if [ -L ./patches ] ; then \ rm ./patches ; \ fi ; \ fi rm -rf ./.pc rm -f debian/stamp-patch* dh_clean /usr/bin/make -C . -k distclean make[1]: Entering directory `/build/buildd/loki-2.4.7.4' make[1]: *** No rule to make target `distclean'. make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-makefile-build rm -f debian/stamp-autotools-files debian/rules build test -x debian/rules mkdir -p "." /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/buildd/loki-2.4.7.4' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' if [ -n "patches" ] ; then \ if [ -L ./patches ] ; then : ; else \ (cd .; ln -s /build/buildd/loki-2.4.7.4/debian/patches patches) ; \ fi ; \ fi cd . && QUILT_PATCHES=patches quilt --quiltrc /dev/null push -a || test $? = 2 Applying patch 10_utils.patch patching file utils/Makefile.in patching file utils/ext.in Applying patch 10_lex patching file lokisrc/param_lex.l patching file lokisrc/param_lex.c Now at patch 10_lex touch debian/stamp-patched /usr/bin/make -f debian/rules update-config make[1]: Entering directory `/build/buildd/loki-2.4.7.4' make[1]: Nothing to be done for `update-config'. make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' touch debian/stamp-autotools-files chmod a+x /build/buildd/loki-2.4.7.4/./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/loki-2.4.7.4/./configure --build=hppa-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/loki" --disable-maintainer-mode --disable-dependency-tracking --srcdir=. checking whether make sets $(MAKE)... yes checking for DMALLOC library Looking for dmalloc.h in ${prefix}/include and libdmalloc.a in ${exec_prefix}/lib Looking for dmalloc.h in /usr/local/include and libdmalloc.a in /usr/local/lib Looking for dmalloc.h in /usr/include and libdmalloc.a in /usr/lib Looking for dmalloc.h in /home/buildd/include and libdmalloc.a in /home/buildd/lib checking for gcc... cc checking for C compiler default output... 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 ANSI C... none needed checking for flex... no checking for lex... no checking for yywrap in -lfl... no checking for yywrap in -ll... no checking for bison... no checking for byacc... no checking for ranlib... /usr/bin/ranlib checking for ar... /usr/bin/ar checking for sed... /bin/sed checking for cp... /bin/cp checking for grep... /bin/grep checking for mv... /bin/mv checking for gzip... /bin/gzip checking for chmod... /bin/chmod checking for perl... /usr/bin/perl checking for makedepend... : checking for sin in -lm... yes checking for accept in -lsocket... no checking how to run the C preprocessor... cc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/wait.h that is POSIX.1 compatible... 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 fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking values.h usability... yes checking values.h presence... yes checking for values.h... yes checking for unistd.h... (cached) yes checking sys/systeminfo.h usability... no checking sys/systeminfo.h presence... no checking for sys/systeminfo.h... no checking for mode_t... yes checking for off_t... yes checking for pid_t... yes checking for size_t... yes checking for working alloca.h... yes checking for alloca... yes checking for socklen_t... yes checking for an ANSI C-conforming const... yes checking for vprintf... yes checking for _doprnt... no checking for memcpy... yes checking for regcomp... yes checking for strtod... yes checking for strtol... yes checking for gethostname... yes checking for popen... yes checking for snprintf... yes checking for atexit... yes checking for memmove... yes configure: creating ./config.status config.status: creating Makefile config.status: creating libsrc/Makefile config.status: creating prepsrc/Makefile config.status: creating prepsrc/compat/Makefile config.status: creating lokisrc/Makefile config.status: creating test/Makefile config.status: creating utils/Makefile config.status: creating include/config.h /usr/bin/make -C . make[1]: Entering directory `/build/buildd/loki-2.4.7.4' for subdir in libsrc prepsrc lokisrc utils; do \ (cd $subdir; /usr/bin/make depend) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/libsrc' : -I../include/ io_stuff.c ranlib.c genrand.c ran_xtra.c mkbackup.c strsep.c utils.c remember.c peel_utils.c qsort.c min_deg.c bin_tree.c getopt_long.c touch depend make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' : -I../include control_parse.c control_lex.c check_het.c test_het.c prep.c calc_nrm.c write_report.c prep_utils.c gen_elim.c prep_do_peel_op.c write_data.c touch depend make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' : -I../include loki.c loki_peel.c loki_init.c alloc_loki.c loki_sample.c loki_pen.c loki_tlmoves.c meiosis_scan.c loki_identity.c sample_rand.c sample_effects.c loki_setup.c loki_dump.c sample_cens.c handle_res.c print_data.c calc_var_locus.c loki_output.c sample_nu.c loki_complex_peel.c loki_npl.c loki_simple_sample.c loki_simple_peel.c loki_trait_simple_peel.c loki_trait_simple_sample.c get_par_probs.c read_solar_idfile.c peel_to_par.c update_segs.c param_parse.c param_lex.c read_binfiles.c loki_utils.c kinship.c genedrop.c mat_utils.c output_recomb.c seg_pen.c gen_pen.c loki_ibd.c get_founders.c pass_founder_genes.c touch depend make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' : -I../include qavg.c hist.c touch depend make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' touch depend for subdir in libsrc prepsrc lokisrc utils; do \ (cd $subdir; /usr/bin/make) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/libsrc' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o io_stuff.o io_stuff.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o ranlib.o ranlib.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o genrand.o genrand.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o ran_xtra.o ran_xtra.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o mkbackup.o mkbackup.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o strsep.o strsep.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o utils.o utils.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o remember.o remember.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o peel_utils.o peel_utils.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o qsort.o qsort.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o min_deg.o min_deg.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o bin_tree.o bin_tree.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include/ -c -o getopt_long.o getopt_long.c /usr/bin/ar cr libgen.a io_stuff.o ranlib.o genrand.o ran_xtra.o mkbackup.o strsep.o utils.o remember.o peel_utils.o qsort.o min_deg.o bin_tree.o getopt_long.o /usr/bin/ranlib libgen.a make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o control_parse.o control_parse.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o control_lex.o control_lex.c lex.yy.c:2064: warning: 'input' defined but not used cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o read_data.o read_data.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o setup_ped.o setup_ped.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o recode_fact.o recode_fact.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o cleanup.o cleanup.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o restrict_data.o restrict_data.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o match_records.o match_records.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o init_fam.o init_fam.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o output_data.o output_data.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o get_marker_name.o get_marker_name.c /usr/bin/ar cr libprep.a control_parse.o control_lex.o read_data.o setup_ped.o recode_fact.o cleanup.o restrict_data.o match_records.o init_fam.o output_data.o get_marker_name.o /usr/bin/ranlib libprep.a cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o prep.o prep.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o calc_nrm.o calc_nrm.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o write_report.o write_report.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o prep_utils.o prep_utils.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o gen_elim.o gen_elim.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o prep_do_peel_op.o prep_do_peel_op.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o write_data.o write_data.c (cd compat; /usr/bin/make) make[3]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc/compat' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../../include -I.. -c -o compat.o compat.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../../include -I.. -c -o merlin.o merlin.c /usr/bin/ar cr libcompat.a compat.o merlin.o /usr/bin/ranlib libcompat.a make[3]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc/compat' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -o prep prep.o calc_nrm.o write_report.o prep_utils.o gen_elim.o prep_do_peel_op.o write_data.o -Wl,-Bsymbolic-functions -L. -L../libsrc -lprep -lgen -Lcompat -lcompat -lm make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o param_parse.o param_parse.c cc -c -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -DYY_NO_UNPUT param_lex.c param_lex.c: In function 'yy_get_next_buffer': param_lex.c:1161: warning: comparison between signed and unsigned param_lex.l: At top level: param_lex.c:1261: warning: 'yyunput' defined but not used param_lex.c:1304: warning: 'input' defined but not used cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o read_binfiles.o read_binfiles.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_utils.o loki_utils.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o kinship.o kinship.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o genedrop.o genedrop.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o mat_utils.o mat_utils.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o output_recomb.o output_recomb.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o seg_pen.o seg_pen.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o gen_pen.o gen_pen.c cc -c -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -DIBD_COMPRESS_PROG=\"/bin/gzip\" loki_ibd.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o get_founders.o get_founders.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o pass_founder_genes.o pass_founder_genes.c /usr/bin/ar cr libloki.a param_parse.o param_lex.o read_binfiles.o loki_utils.o kinship.o genedrop.o mat_utils.o output_recomb.o seg_pen.o gen_pen.o loki_ibd.o get_founders.o pass_founder_genes.o /usr/bin/ranlib libloki.a cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki.o loki.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_peel.o loki_peel.c loki_peel.c: In function 'peel_locus': loki_peel.c:145: warning: 'z' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_init.o loki_init.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o alloc_loki.o alloc_loki.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_sample.o loki_sample.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_pen.o loki_pen.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_tlmoves.o loki_tlmoves.c loki_tlmoves.c: In function 'get_tl_position': loki_tlmoves.c:606: warning: 'z' may be used uninitialized in this function loki_tlmoves.c: In function 'sample_mpos': loki_tlmoves.c:153: warning: 'x1' may be used uninitialized in this function loki_tlmoves.c:153: warning: 'x' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o meiosis_scan.o meiosis_scan.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_identity.o loki_identity.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o sample_rand.o sample_rand.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o sample_effects.o sample_effects.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_setup.o loki_setup.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_dump.o loki_dump.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o sample_cens.o sample_cens.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o handle_res.o handle_res.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o print_data.o print_data.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o calc_var_locus.o calc_var_locus.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_output.o loki_output.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o sample_nu.o sample_nu.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_complex_peel.o loki_complex_peel.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_npl.o loki_npl.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_simple_sample.o loki_simple_sample.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_simple_peel.o loki_simple_peel.c loki_simple_peel.c: In function 'loki_simple_peelop_x': loki_simple_peel.c:723: warning: 'cm[1]' may be used uninitialized in this function loki_simple_peel.c:723: warning: 'cm[0]' may be used uninitialized in this function loki_simple_peel.c: In function 'loki_simple_peelop': loki_simple_peel.c:27: warning: 'cm[1]' may be used uninitialized in this function loki_simple_peel.c:27: warning: 'cm[0]' may be used uninitialized in this function cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_trait_simple_peel.o loki_trait_simple_peel.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o loki_trait_simple_sample.o loki_trait_simple_sample.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o get_par_probs.o get_par_probs.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o read_solar_idfile.o read_solar_idfile.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o peel_to_par.o peel_to_par.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -c -o update_segs.o update_segs.c cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -o loki loki.o loki_peel.o loki_init.o alloc_loki.o loki_sample.o loki_pen.o loki_tlmoves.o meiosis_scan.o loki_identity.o sample_rand.o sample_effects.o loki_setup.o loki_dump.o sample_cens.o handle_res.o print_data.o calc_var_locus.o loki_output.o sample_nu.o loki_complex_peel.o loki_npl.o loki_simple_sample.o loki_simple_peel.o loki_trait_simple_peel.o loki_trait_simple_sample.o get_par_probs.o read_solar_idfile.o peel_to_par.o update_segs.o -Wl,-Bsymbolic-functions -L. -L../libsrc -lloki -lgen -lm make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -o qavg qavg.c -lm cc -g -O2 -g -Wall -O2 -W -Wall -pedantic -ffloat-store -Wno-long-long -I../include -o hist hist.c make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' 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 "." DEB_MAKE_CHECK_TARGET unset, not running checks /usr/bin/make -C . install prefix=/build/buildd/loki-2.4.7.4/debian/tmp/usr bindir=/build/buildd/loki-2.4.7.4/debian/loki/usr/bin make[1]: Entering directory `/build/buildd/loki-2.4.7.4' for subdir in libsrc prepsrc lokisrc utils; do \ (cd $subdir; /usr/bin/make) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' for subdir in prepsrc lokisrc utils; do \ (cd $subdir; /usr/bin/make install) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' mkdir ../bin for file in prep; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' for file in loki; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' for file in ext count dist freq sort_error; do \ /bin/sed 's!+PERLPROG+!/usr/bin/perl!' $file.in > /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/loki_$file; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/loki_$file; \ done for file in qavg hist; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' dh_installdirs -ploki for man in check_het.1 hist.1 loki_count.1 loki_dist.1 loki_ext.1 loki_freq.1 loki_sort_error.1 prep.1 qavg.1 ; do \ ln -s loki.1.gz debian/loki/usr/share/man/man1/${man}.gz ; \ done make install prefix=/build/buildd/loki-2.4.7.4/debian/loki/usr bindir=/build/buildd/loki-2.4.7.4/debian/loki/usr/bin make[1]: Entering directory `/build/buildd/loki-2.4.7.4' for subdir in libsrc prepsrc lokisrc utils; do \ (cd $subdir; make) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/libsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' for subdir in prepsrc lokisrc utils; do \ (cd $subdir; make install) \ done make[2]: Entering directory `/build/buildd/loki-2.4.7.4/prepsrc' for file in prep; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/prepsrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/lokisrc' for file in loki; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/lokisrc' make[2]: Entering directory `/build/buildd/loki-2.4.7.4/utils' for file in ext count dist freq sort_error; do \ /bin/sed 's!+PERLPROG+!/usr/bin/perl!' $file.in > /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/loki_$file; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/loki_$file; \ done for file in qavg hist; do \ /bin/cp $file /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/; \ /bin/chmod 755 /build/buildd/loki-2.4.7.4/debian/loki/usr/bin/$file ; \ done make[2]: Leaving directory `/build/buildd/loki-2.4.7.4/utils' make[1]: Leaving directory `/build/buildd/loki-2.4.7.4' dh_installdocs -ploki ./README dh_installexamples -ploki dh_installman -ploki dh_installinfo -ploki dh_installmenu -ploki dh_installcron -ploki dh_installinit -ploki dh_installdebconf -ploki dh_installemacsen -ploki dh_installcatalogs -ploki dh_installpam -ploki dh_installlogrotate -ploki dh_installlogcheck -ploki dh_installchangelogs -ploki dh_installudev -ploki dh_lintian -ploki dh_install -ploki dh_link -ploki dh_installmime -ploki dh_strip -ploki dh_strip debug symbol extraction: all non-arch-all packages for this build platform hppa: loki dh_strip debug symbol extraction: packages to act on: loki dh_strip debug symbol extraction: ignored packages: pkgstriptranslations: processing control file: ./debian/loki-dbgsym/DEBIAN/control, package loki-dbgsym, directory ./debian/loki-dbgsym pkgstriptranslations: loki-dbgsym does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball dpkg-deb: building package `loki-dbgsym' in `../loki-dbgsym_2.4.7.4-4_hppa.ddeb'. dh_compress -ploki dh_fixperms -ploki dh_makeshlibs -ploki dh_installdeb -ploki dh_perl -ploki dh_shlibdeps -ploki dh_gencontrol -ploki # symlink identical documentation to depending packages [ -n "$CDBS_NO_DOC_SYMLINKING" ] || \ [ -h debian/loki/usr/share/doc ] || \ [ ! -d debian/loki/usr/share/doc ] || \ for dep in `perl -ne 'if (/^(Pre-)?Depends:/) {s/^\w+://; foreach (split /,/) { split; print($_[0], "\n"); } }' debian/loki/DEBIAN/control`; do \ if [ -d debian/$dep/usr/share/doc ]; then \ echo "Searching for duplicated docs in dependency $dep..."; \ rootdir=`pwd`; \ (cd debian/loki/usr/share/doc/loki; find -type f ! -name copyright | while read f; do \ thisfile="$rootdir/debian/loki/usr/share/doc/loki/$f"; \ depfile="$rootdir/debian/$dep/usr/share/doc/$dep/$f"; \ if [ -f $depfile -o -L $depfile ] && zcmp $thisfile $depfile >/dev/null; then \ echo " symlinking $f in loki 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/loki/usr/share/gnome/help ]; then \ cd debian/loki && 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 loki dh_md5sums -ploki dh_builddeb -ploki pkgstriptranslations: processing control file: ./debian/loki/DEBIAN/control, package loki, directory ./debian/loki pkgstriptranslations: loki does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball dpkg-deb: building package `loki' in `../loki_2.4.7.4-4_hppa.deb'. dpkg-genchanges -B -mUbuntu/hppa Build Daemon >../loki_2.4.7.4-4_hppa.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 20080516-0927 Publishing debug debs. chroot-autobuild/build/buildd/loki_2.4.7.4-4_hppa.deb: new debian package, version 2.0. size 411668 bytes: control archive= 1247 bytes. 927 bytes, 20 lines control 1005 bytes, 17 lines md5sums Package: loki Version: 2.4.7.4-4 Architecture: hppa Maintainer: Debian-Med Packaging Team Installed-Size: 844 Depends: libc6 (>= 2.6.1-1) Suggests: loki-doc Section: science Priority: optional Homepage: http://web.archive.org/web/20051220050931/http://loki.homeunix.net/ Description: MCMC linkage analysis on general pedigrees Performs Markov chain Monte Carlo multipoint linkage analysis on large, complex pedigrees. The current package supports analyses on quantitative traits only, although this restriction will be lifted in later versions. Joint estimation of QTL number, position and effects uses Reversible Jump MCMC. It is also possible to perform affected only IBD sharing analyses. . The homepage of this project used to be at http://loki.homeunix.net but the project is dead now and the homepage vanished. The Homepage field above points to the web archive. chroot-autobuild/build/buildd/loki_2.4.7.4-4_hppa.deb: drwxr-xr-x root/root 0 2008-05-16 09:27:11 ./ drwxr-xr-x root/root 0 2008-05-16 09:27:06 ./usr/ drwxr-xr-x root/root 0 2008-05-16 09:27:23 ./usr/bin/ -rwxr-xr-x root/root 253768 2008-05-16 09:27:23 ./usr/bin/prep -rwxr-xr-x root/root 459844 2008-05-16 09:27:23 ./usr/bin/loki -rwxr-xr-x root/root 9834 2008-05-16 09:27:07 ./usr/bin/loki_ext -rwxr-xr-x root/root 8539 2008-05-16 09:27:07 ./usr/bin/loki_count -rwxr-xr-x root/root 8426 2008-05-16 09:27:07 ./usr/bin/loki_dist -rwxr-xr-x root/root 3471 2008-05-16 09:27:07 ./usr/bin/loki_freq -rwxr-xr-x root/root 1442 2008-05-16 09:27:07 ./usr/bin/loki_sort_error -rwxr-xr-x root/root 11528 2008-05-16 09:27:23 ./usr/bin/qavg -rwxr-xr-x root/root 9700 2008-05-16 09:27:23 ./usr/bin/hist drwxr-xr-x root/root 0 2008-05-16 09:27:06 ./usr/share/ drwxr-xr-x root/root 0 2008-05-16 09:27:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2008-05-16 09:27:23 ./usr/share/doc/loki/ -rw-r--r-- root/root 1990 2003-04-15 12:49:24 ./usr/share/doc/loki/README -rw-r--r-- root/root 471 2002-04-15 15:06:28 ./usr/share/doc/loki/README.known_systems -rw-r--r-- root/root 580 2002-07-11 16:06:21 ./usr/share/doc/loki/README.multiple_records -rw-r--r-- root/root 1910 2002-07-11 16:06:21 ./usr/share/doc/loki/README.parallel_runs -rw-r--r-- root/root 894 2008-05-16 09:23:23 ./usr/share/doc/loki/README.Debian -rw-r--r-- root/root 1624 2008-05-16 09:23:23 ./usr/share/doc/loki/copyright -rw-r--r-- root/root 1436 2008-05-16 09:23:23 ./usr/share/doc/loki/changelog.Debian.gz drwxr-xr-x root/root 0 2008-05-16 09:27:06 ./usr/share/man/ drwxr-xr-x root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/ -rw-r--r-- root/root 1005 2008-05-16 09:27:09 ./usr/share/man/man1/loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/check_het.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/hist.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/loki_count.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/loki_dist.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/loki_ext.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/loki_freq.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/loki_sort_error.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/prep.1.gz -> loki.1.gz lrwxrwxrwx root/root 0 2008-05-16 09:27:31 ./usr/share/man/man1/qavg.1.gz -> loki.1.gz loki_2.4.7.4-4_hppa.changes: Format: 1.7 Date: Tue, 25 Mar 2008 15:14:26 +0100 Source: loki Binary: loki loki-doc Architecture: hppa Version: 2.4.7.4-4 Distribution: intrepid Urgency: low Maintainer: Ubuntu/hppa Build Daemon Changed-By: Andreas Tille Description: loki - MCMC linkage analysis on general pedigrees loki-doc - Postscript manual for loki Closes: 409370 Changes: loki (2.4.7.4-4) unstable; urgency=low . * Fixed lokisrc/param_lex.l and regenerated C file to solve problem with redefined __unused on 64 bit systems (Thanks to brian m. carlson ) Closes: #409370 Files: ac4140b84a5a9a80b84458a83e13dc1d 411668 science optional loki_2.4.7.4-4_hppa.deb ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/loki-2.4.7.4 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --root=/home/buildd/build-586106-1492469/chroot-autobuild --purge intltool-debian groff-base m4 gettext file libhtml-parser-perl intltool automake1.7 cdbs libwww-perl liburi-perl html2text diffstat gettext-base debhelper libhtml-tree-perl ifupdown autotools-dev po-debconf net-tools quilt libxml-parser-perl libmagic1 libhtml-tagset-perl libexpat1 netbase bsdmainutils fdupes update-inetd man-db autoconf (Reading database ... 11988 files and directories currently installed.) Removing cdbs ... Removing debhelper ... Removing po-debconf ... Removing quilt ... Purging configuration files for quilt ... 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 diffstat ... 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 20080516-0927 Build needed 00:04:13, 11076k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '586106-1492469'] Scanning for processes to kill in build 586106-1492469... Scanning for processes to kill in build /home/buildd/build-586106-1492469/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '586106-1492469'] Unmounting chroot for build 586106-1492469... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '586106-1492469'] Removing build 586106-1492469