RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'b36090a90e0da70e03e2f653d19c675c2ed821dd', '/home/buildd/filecache-default/d25cfce2b3fece95dbe9195395127ff90e07576e'] Synching the system clock with the buildd NTP service... 11 May 19:09:49 ntpdate[27960]: adjust time server 10.211.37.1 offset 0.001073 sec Unpacking chroot for build b36090a90e0da70e03e2f653d19c675c2ed821dd RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'b36090a90e0da70e03e2f653d19c675c2ed821dd'] Mounting chroot for build b36090a90e0da70e03e2f653d19c675c2ed821dd RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'b36090a90e0da70e03e2f653d19c675c2ed821dd', 'deb http://ftpmaster.internal/ubuntu oneiric main universe'] Overriding sources.list in build-b36090a90e0da70e03e2f653d19c675c2ed821dd RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'b36090a90e0da70e03e2f653d19c675c2ed821dd', 'armel'] Updating debian chroot for build b36090a90e0da70e03e2f653d19c675c2ed821dd Ign http://ftpmaster.internal oneiric InRelease Get:1 http://ftpmaster.internal oneiric Release.gpg [198 B] Get:2 http://ftpmaster.internal oneiric Release [39.8 kB] Get:3 http://ftpmaster.internal oneiric/main armel Packages [1549 kB] Get:4 http://ftpmaster.internal oneiric/universe armel Packages [5929 kB] Ign http://ftpmaster.internal oneiric/main TranslationIndex Ign http://ftpmaster.internal oneiric/universe TranslationIndex Ign http://ftpmaster.internal oneiric/main Translation-en Ign http://ftpmaster.internal oneiric/universe Translation-en Fetched 7518 kB in 21s (355 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: binutils cpp-4.6 dpkg g++-4.6 gcc-4.5-base gcc-4.6 gcc-4.6-base insserv libc-bin libc-dev-bin libc6 libc6-dev libdb5.1 libgcc1 libgomp1 libidn11 libmpfr4 libncurses5 libncursesw5 libreadline6 libsepol1 libstdc++6 libstdc++6-4.6-dev linux-libc-dev multiarch-support ncurses-bin patch sed 28 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 28.6 MB of archives. After this operation, 69.6 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! dpkg ncurses-bin sed libc-dev-bin libc6-dev libc-bin libc6 linux-libc-dev libgomp1 gcc-4.6-base libstdc++6 cpp-4.6 libstdc++6-4.6-dev g++-4.6 gcc-4.6 libgcc1 libmpfr4 binutils libncurses5 libreadline6 libdb5.1 libsepol1 multiarch-support insserv libncursesw5 libidn11 gcc-4.5-base patch Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ oneiric/main dpkg armel 1.16.0~ubuntu8 [1828 kB] Get:2 http://ftpmaster.internal/ubuntu/ oneiric/main ncurses-bin armel 5.9-1 [147 kB] Get:3 http://ftpmaster.internal/ubuntu/ oneiric/main sed armel 4.2.1-9 [134 kB] Get:4 http://ftpmaster.internal/ubuntu/ oneiric/main libc-dev-bin armel 2.13-2ubuntu1 [75.2 kB] Get:5 http://ftpmaster.internal/ubuntu/ oneiric/main libc6-dev armel 2.13-2ubuntu1 [2331 kB] Get:6 http://ftpmaster.internal/ubuntu/ oneiric/main libc-bin armel 2.13-2ubuntu1 [847 kB] Get:7 http://ftpmaster.internal/ubuntu/ oneiric/main libc6 armel 2.13-2ubuntu1 [3846 kB] Get:8 http://ftpmaster.internal/ubuntu/ oneiric/main linux-libc-dev armel 2.6.39-1.6 [778 kB] Get:9 http://ftpmaster.internal/ubuntu/ oneiric/main libgomp1 armel 4.6.0-6ubuntu3 [23.6 kB] Get:10 http://ftpmaster.internal/ubuntu/ oneiric/main gcc-4.6-base armel 4.6.0-6ubuntu3 [15.1 kB] Get:11 http://ftpmaster.internal/ubuntu/ oneiric/main libstdc++6 armel 4.6.0-6ubuntu3 [275 kB] Get:12 http://ftpmaster.internal/ubuntu/ oneiric/main cpp-4.6 armel 4.6.0-6ubuntu3 [4021 kB] Get:13 http://ftpmaster.internal/ubuntu/ oneiric/main libstdc++6-4.6-dev armel 4.6.0-6ubuntu3 [1642 kB] Get:14 http://ftpmaster.internal/ubuntu/ oneiric/main g++-4.6 armel 4.6.0-6ubuntu3 [4351 kB] Get:15 http://ftpmaster.internal/ubuntu/ oneiric/main gcc-4.6 armel 4.6.0-6ubuntu3 [4475 kB] Get:16 http://ftpmaster.internal/ubuntu/ oneiric/main libgcc1 armel 1:4.6.0-6ubuntu3 [22.2 kB] Get:17 http://ftpmaster.internal/ubuntu/ oneiric/main libmpfr4 armel 3.0.1-3 [169 kB] Get:18 http://ftpmaster.internal/ubuntu/ oneiric/main binutils armel 2.21.51.20110421-0ubuntu6 [2218 kB] Get:19 http://ftpmaster.internal/ubuntu/ oneiric/main libncurses5 armel 5.9-1 [162 kB] Get:20 http://ftpmaster.internal/ubuntu/ oneiric/main libreadline6 armel 6.2-1 [112 kB] Get:21 http://ftpmaster.internal/ubuntu/ oneiric/main libdb5.1 armel 5.1.25-10 [597 kB] Get:22 http://ftpmaster.internal/ubuntu/ oneiric/main libsepol1 armel 2.0.42-1 [103 kB] Get:23 http://ftpmaster.internal/ubuntu/ oneiric/main multiarch-support armel 2.13-2ubuntu1 [6724 B] Get:24 http://ftpmaster.internal/ubuntu/ oneiric/main insserv armel 1.14.0-2.1 [47.3 kB] Get:25 http://ftpmaster.internal/ubuntu/ oneiric/main libncursesw5 armel 5.9-1 [183 kB] Get:26 http://ftpmaster.internal/ubuntu/ oneiric/main libidn11 armel 1.20-1 [107 kB] Get:27 http://ftpmaster.internal/ubuntu/ oneiric/main gcc-4.5-base armel 4.5.3-1ubuntu1 [12.2 kB] Get:28 http://ftpmaster.internal/ubuntu/ oneiric/main patch armel 2.6.1-1 [78.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 28.6 MB in 3s (8644 kB/s) (Reading database ... 14084 files and directories currently installed.) Preparing to replace dpkg 1.16.0~ubuntu7 (using .../dpkg_1.16.0~ubuntu8_armel.deb) ... Unpacking replacement dpkg ... Setting up dpkg (1.16.0~ubuntu8) ... (Reading database ... 14084 files and directories currently installed.) Preparing to replace ncurses-bin 5.7+20101128-1 (using .../ncurses-bin_5.9-1_armel.deb) ... Unpacking replacement ncurses-bin ... Setting up ncurses-bin (5.9-1) ... (Reading database ... 14084 files and directories currently installed.) Preparing to replace sed 4.2.1-8 (using .../archives/sed_4.2.1-9_armel.deb) ... Unpacking replacement sed ... Setting up sed (4.2.1-9) ... (Reading database ... 14084 files and directories currently installed.) Preparing to replace libc-dev-bin 2.13-0ubuntu15 (using .../libc-dev-bin_2.13-2ubuntu1_armel.deb) ... Unpacking replacement libc-dev-bin ... Preparing to replace libc6-dev 2.13-0ubuntu15 (using .../libc6-dev_2.13-2ubuntu1_armel.deb) ... Unpacking replacement libc6-dev ... Preparing to replace libc-bin 2.13-0ubuntu15 (using .../libc-bin_2.13-2ubuntu1_armel.deb) ... Unpacking replacement libc-bin ... Setting up libc-bin (2.13-2ubuntu1) ... (Reading database ... 14084 files and directories currently installed.) Preparing to replace libc6 2.13-0ubuntu15 (using .../libc6_2.13-2ubuntu1_armel.deb) ... Unpacking replacement libc6 ... Setting up libc6 (2.13-2ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14084 files and directories currently installed.) Preparing to replace linux-libc-dev 2.6.38-8.42 (using .../linux-libc-dev_2.6.39-1.6_armel.deb) ... Unpacking replacement linux-libc-dev ... Preparing to replace libgomp1 4.6.0-6ubuntu2 (using .../libgomp1_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement libgomp1 ... Preparing to replace gcc-4.6-base 4.6.0-6ubuntu2 (using .../gcc-4.6-base_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement gcc-4.6-base ... Setting up gcc-4.6-base (4.6.0-6ubuntu3) ... (Reading database ... 14098 files and directories currently installed.) Preparing to replace libstdc++6 4.6.0-6ubuntu2 (using .../libstdc++6_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.6.0-6ubuntu3) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14098 files and directories currently installed.) Preparing to replace cpp-4.6 4.6.0-6ubuntu2 (using .../cpp-4.6_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement cpp-4.6 ... Preparing to replace libstdc++6-4.6-dev 4.6.0-6ubuntu2 (using .../libstdc++6-4.6-dev_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement libstdc++6-4.6-dev ... Preparing to replace g++-4.6 4.6.0-6ubuntu2 (using .../g++-4.6_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement g++-4.6 ... Preparing to replace gcc-4.6 4.6.0-6ubuntu2 (using .../gcc-4.6_4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement gcc-4.6 ... Preparing to replace libgcc1 1:4.6.0-6ubuntu2 (using .../libgcc1_1%3a4.6.0-6ubuntu3_armel.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.6.0-6ubuntu3) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14098 files and directories currently installed.) Preparing to replace libmpfr4 3.0.1-2 (using .../libmpfr4_3.0.1-3_armel.deb) ... Unpacking replacement libmpfr4 ... Preparing to replace binutils 2.21.51.20110421-0ubuntu5 (using .../binutils_2.21.51.20110421-0ubuntu6_armel.deb) ... Unpacking replacement binutils ... Preparing to replace libncurses5 5.7+20101128-1 (using .../libncurses5_5.9-1_armel.deb) ... Unpacking replacement libncurses5 ... Setting up libncurses5 (5.9-1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14098 files and directories currently installed.) Preparing to replace libreadline6 6.2-0ubuntu1 (using .../libreadline6_6.2-1_armel.deb) ... Unpacking replacement libreadline6 ... Setting up libreadline6 (6.2-1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14098 files and directories currently installed.) Preparing to replace libdb5.1 5.1.19-2ubuntu1 (using .../libdb5.1_5.1.25-10_armel.deb) ... Unpacking replacement libdb5.1 ... Setting up libdb5.1 (5.1.25-10) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14099 files and directories currently installed.) Preparing to replace libsepol1 2.0.41-1 (using .../libsepol1_2.0.42-1_armel.deb) ... Unpacking replacement libsepol1 ... Setting up libsepol1 (2.0.42-1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 14098 files and directories currently installed.) Preparing to replace multiarch-support 2.13-0ubuntu15 (using .../multiarch-support_2.13-2ubuntu1_armel.deb) ... Unpacking replacement multiarch-support ... Setting up multiarch-support (2.13-2ubuntu1) ... (Reading database ... 14098 files and directories currently installed.) Preparing to replace insserv 1.14.0-2 (using .../insserv_1.14.0-2.1_armel.deb) ... Unpacking replacement insserv ... Preparing to replace libncursesw5 5.7+20101128-1 (using .../libncursesw5_5.9-1_armel.deb) ... Unpacking replacement libncursesw5 ... Preparing to replace libidn11 1.18-1build1 (using .../libidn11_1.20-1_armel.deb) ... Unpacking replacement libidn11 ... Preparing to replace gcc-4.5-base 4.5.2-11ubuntu2 (using .../gcc-4.5-base_4.5.3-1ubuntu1_armel.deb) ... Unpacking replacement gcc-4.5-base ... Preparing to replace patch 2.6-3 (using .../patch_2.6.1-1_armel.deb) ... Unpacking replacement patch ... Setting up libc-dev-bin (2.13-2ubuntu1) ... Setting up linux-libc-dev (2.6.39-1.6) ... Setting up libc6-dev (2.13-2ubuntu1) ... Setting up libgomp1 (4.6.0-6ubuntu3) ... Setting up libmpfr4 (3.0.1-3) ... Setting up cpp-4.6 (4.6.0-6ubuntu3) ... Setting up binutils (2.21.51.20110421-0ubuntu6) ... Setting up gcc-4.6 (4.6.0-6ubuntu3) ... Setting up insserv (1.14.0-2.1) ... Installing new version of config file /etc/insserv.conf ... Setting up libncursesw5 (5.9-1) ... Setting up libidn11 (1.20-1) ... Setting up gcc-4.5-base (4.5.3-1ubuntu1) ... Setting up patch (2.6.1-1) ... Setting up g++-4.6 (4.6.0-6ubuntu3) ... Setting up libstdc++6-4.6-dev (4.6.0-6ubuntu3) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'b36090a90e0da70e03e2f653d19c675c2ed821dd', 'armel', 'oneiric', '--nolog', '--batch', '--archive=ubuntu', '--dist=oneiric', '--purpose=PRIMARY', '--architecture=armel', '--comp=universe', 'fastlink_4.1P-fix95-2.dsc'] Initiating build b36090a90e0da70e03e2f653d19c675c2ed821dd with 0 processor cores. Automatic build of fastlink_4.1P-fix95-2 on satinash by sbuild/armel 1.170.5 Build started at 20110511-1912 ****************************************************************************** fastlink_4.1P-fix95-2.dsc exists in cwd sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) ** Using build dependencies supplied by package: Build-Depends: cdbs, debhelper (>= 7) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) sh: gcc: not found dpkg-architecture: warning: Couldn't determine gcc system type, falling back to default (native compilation) Checking for already installed source dependencies... cdbs: missing debhelper: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install cdbs debhelper Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autoconf automake autotools-dev bsdmainutils dh-translations fdupes file gettext gettext-base groff-base html2text intltool intltool-debian libcroco3 libexpat1 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 libpipeline1 libsqlite3-0 libunistring0 liburi-perl libwww-perl libxml-parser-perl libxml2 m4 man-db mime-support po-debconf python python-scour python2.7 Suggested packages: autoconf2.13 autoconf-archive gnu-standards autoconf-doc libtool wamerican wordlist whois vacation devscripts dh-make gettext-doc groff libdata-dump-perl libcrypt-ssleay-perl libio-socket-ssl-perl less www-browser libmail-box-perl python-doc python-tk python-profiler python-rsvg python-cairo python2.7-doc python2.7-profiler Recommended packages: curl wget lynx-cur libmailtools-perl libhtml-format-perl xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autotools-dev bsdmainutils cdbs debhelper dh-translations fdupes file gettext gettext-base groff-base html2text intltool intltool-debian libcroco3 libexpat1 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libmagic1 libpipeline1 libsqlite3-0 libunistring0 liburi-perl libwww-perl libxml-parser-perl libxml2 m4 man-db mime-support po-debconf python python-scour python2.7 0 upgraded, 35 newly installed, 0 to remove and 0 not upgraded. Need to get 10.8 MB of archives. After this operation, 37.0 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libexpat1 libsqlite3-0 libmagic1 file mime-support python2.7 python bsdmainutils gettext-base groff-base liburi-perl libhtml-tagset-perl libhtml-parser-perl libhtml-tree-perl libpipeline1 libwww-perl libxml-parser-perl libxml2 man-db m4 autoconf autotools-dev automake html2text libcroco3 libunistring0 gettext intltool-debian po-debconf debhelper fdupes intltool dh-translations python-scour cdbs Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ oneiric/main libexpat1 armel 2.0.1-7ubuntu3 [103 kB] Get:2 http://ftpmaster.internal/ubuntu/ oneiric/main libsqlite3-0 armel 3.7.4-2ubuntu5 [270 kB] Get:3 http://ftpmaster.internal/ubuntu/ oneiric/main libmagic1 armel 5.04-5ubuntu2 [201 kB] Get:4 http://ftpmaster.internal/ubuntu/ oneiric/main file armel 5.04-5ubuntu2 [22.2 kB] Get:5 http://ftpmaster.internal/ubuntu/ oneiric/main mime-support all 3.51-1ubuntu1 [30.7 kB] Get:6 http://ftpmaster.internal/ubuntu/ oneiric/main python2.7 armel 2.7.1-5ubuntu2 [2512 kB] Get:7 http://ftpmaster.internal/ubuntu/ oneiric/main python all 2.7.1-0ubuntu5 [163 kB] Get:8 http://ftpmaster.internal/ubuntu/ oneiric/main bsdmainutils armel 8.2.2 [193 kB] Get:9 http://ftpmaster.internal/ubuntu/ oneiric/main gettext-base armel 0.18.1.1-3ubuntu1 [56.1 kB] Get:10 http://ftpmaster.internal/ubuntu/ oneiric/main groff-base armel 1.21-5 [929 kB] Get:11 http://ftpmaster.internal/ubuntu/ oneiric/main liburi-perl all 1.58-1 [89.8 kB] Get:12 http://ftpmaster.internal/ubuntu/ oneiric/main libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:13 http://ftpmaster.internal/ubuntu/ oneiric/main libhtml-parser-perl armel 3.68-1build1 [95.5 kB] Get:14 http://ftpmaster.internal/ubuntu/ oneiric/main libhtml-tree-perl all 4.2-1 [205 kB] Get:15 http://ftpmaster.internal/ubuntu/ oneiric/main libpipeline1 armel 1.2.0-1 [20.3 kB] Get:16 http://ftpmaster.internal/ubuntu/ oneiric/main libwww-perl all 5.837-1 [363 kB] Get:17 http://ftpmaster.internal/ubuntu/ oneiric/main libxml-parser-perl armel 2.36-1.1build4 [281 kB] Get:18 http://ftpmaster.internal/ubuntu/ oneiric/main libxml2 armel 2.7.8.dfsg-2 [561 kB] Get:19 http://ftpmaster.internal/ubuntu/ oneiric/main man-db armel 2.6.0.2-1 [677 kB] Get:20 http://ftpmaster.internal/ubuntu/ oneiric/main m4 armel 1.4.16-1 [182 kB] Get:21 http://ftpmaster.internal/ubuntu/ oneiric/main autoconf all 2.68-1ubuntu1 [560 kB] Get:22 http://ftpmaster.internal/ubuntu/ oneiric/main autotools-dev all 20110508.1 [45.1 kB] Get:23 http://ftpmaster.internal/ubuntu/ oneiric/main automake all 1:1.11.1-1ubuntu1 [544 kB] Get:24 http://ftpmaster.internal/ubuntu/ oneiric/main html2text armel 1.3.2a-15 [94.3 kB] Get:25 http://ftpmaster.internal/ubuntu/ oneiric/main libcroco3 armel 0.6.2-1 [89.5 kB] Get:26 http://ftpmaster.internal/ubuntu/ oneiric/main libunistring0 armel 0.9.3-4 [394 kB] Get:27 http://ftpmaster.internal/ubuntu/ oneiric/main gettext armel 0.18.1.1-3ubuntu1 [1156 kB] Get:28 http://ftpmaster.internal/ubuntu/ oneiric/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:29 http://ftpmaster.internal/ubuntu/ oneiric/main po-debconf all 1.0.16+nmu1 [212 kB] Get:30 http://ftpmaster.internal/ubuntu/ oneiric/main debhelper all 8.1.6ubuntu1 [484 kB] Get:31 http://ftpmaster.internal/ubuntu/ oneiric/main fdupes armel 1.50-PR2-3 [20.9 kB] Get:32 http://ftpmaster.internal/ubuntu/ oneiric/main intltool all 0.41.1-1 [103 kB] Get:33 http://ftpmaster.internal/ubuntu/ oneiric/main dh-translations all 97 [18.6 kB] Get:34 http://ftpmaster.internal/ubuntu/ oneiric/main python-scour all 0.25+bzr207-2.1 [45.7 kB] Get:35 http://ftpmaster.internal/ubuntu/ oneiric/main cdbs all 0.4.93ubuntu2 [48.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.8 MB in 1s (7925 kB/s) Selecting previously deselected package libexpat1. (Reading database ... 14096 files and directories currently installed.) Unpacking libexpat1 (from .../libexpat1_2.0.1-7ubuntu3_armel.deb) ... Selecting previously deselected package libsqlite3-0. Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2ubuntu5_armel.deb) ... Selecting previously deselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_5.04-5ubuntu2_armel.deb) ... Selecting previously deselected package file. Unpacking file (from .../file_5.04-5ubuntu2_armel.deb) ... Selecting previously deselected package mime-support. Unpacking mime-support (from .../mime-support_3.51-1ubuntu1_all.deb) ... Selecting previously deselected package python2.7. Unpacking python2.7 (from .../python2.7_2.7.1-5ubuntu2_armel.deb) ... Selecting previously deselected package python. Unpacking python (from .../python_2.7.1-0ubuntu5_all.deb) ... Selecting previously deselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_armel.deb) ... Selecting previously deselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-3ubuntu1_armel.deb) ... Selecting previously deselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-5_armel.deb) ... Selecting previously deselected package liburi-perl. Unpacking liburi-perl (from .../liburi-perl_1.58-1_all.deb) ... Selecting previously deselected package libhtml-tagset-perl. Unpacking libhtml-tagset-perl (from .../libhtml-tagset-perl_3.20-2_all.deb) ... Selecting previously deselected package libhtml-parser-perl. Unpacking libhtml-parser-perl (from .../libhtml-parser-perl_3.68-1build1_armel.deb) ... Selecting previously deselected package libhtml-tree-perl. Unpacking libhtml-tree-perl (from .../libhtml-tree-perl_4.2-1_all.deb) ... Selecting previously deselected package libpipeline1. Unpacking libpipeline1 (from .../libpipeline1_1.2.0-1_armel.deb) ... Selecting previously deselected package libwww-perl. Unpacking libwww-perl (from .../libwww-perl_5.837-1_all.deb) ... Selecting previously deselected package libxml-parser-perl. Unpacking libxml-parser-perl (from .../libxml-parser-perl_2.36-1.1build4_armel.deb) ... Selecting previously deselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_armel.deb) ... Selecting previously deselected package man-db. Unpacking man-db (from .../man-db_2.6.0.2-1_armel.deb) ... Selecting previously deselected package m4. Unpacking m4 (from .../archives/m4_1.4.16-1_armel.deb) ... Selecting previously deselected package autoconf. Unpacking autoconf (from .../autoconf_2.68-1ubuntu1_all.deb) ... Selecting previously deselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20110508.1_all.deb) ... Selecting previously deselected package automake. Unpacking automake (from .../automake_1%3a1.11.1-1ubuntu1_all.deb) ... Selecting previously deselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ... Selecting previously deselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.2-1_armel.deb) ... Selecting previously deselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-4_armel.deb) ... Selecting previously deselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-3ubuntu1_armel.deb) ... Selecting previously deselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously deselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ... Selecting previously deselected package debhelper. Unpacking debhelper (from .../debhelper_8.1.6ubuntu1_all.deb) ... Selecting previously deselected package fdupes. Unpacking fdupes (from .../fdupes_1.50-PR2-3_armel.deb) ... Selecting previously deselected package intltool. Unpacking intltool (from .../intltool_0.41.1-1_all.deb) ... Selecting previously deselected package dh-translations. Unpacking dh-translations (from .../dh-translations_97_all.deb) ... Selecting previously deselected package python-scour. Unpacking python-scour (from .../python-scour_0.25+bzr207-2.1_all.deb) ... Selecting previously deselected package cdbs. Unpacking cdbs (from .../cdbs_0.4.93ubuntu2_all.deb) ... Setting up libexpat1 (2.0.1-7ubuntu3) ... Setting up libsqlite3-0 (3.7.4-2ubuntu5) ... Setting up libmagic1 (5.04-5ubuntu2) ... Setting up file (5.04-5ubuntu2) ... Setting up mime-support (3.51-1ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode. Setting up python2.7 (2.7.1-5ubuntu2) ... Setting up python (2.7.1-0ubuntu5) ... Setting up bsdmainutils (8.2.2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode. Setting up gettext-base (0.18.1.1-3ubuntu1) ... Setting up groff-base (1.21-5) ... Setting up liburi-perl (1.58-1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up libhtml-parser-perl (3.68-1build1) ... Setting up libhtml-tree-perl (4.2-1) ... Setting up libpipeline1 (1.2.0-1) ... Setting up libwww-perl (5.837-1) ... Setting up libxml-parser-perl (2.36-1.1build4) ... Setting up libxml2 (2.7.8.dfsg-2) ... Setting up man-db (2.6.0.2-1) ... Building database of manual pages ... Setting up m4 (1.4.16-1) ... Setting up autoconf (2.68-1ubuntu1) ... Setting up autotools-dev (20110508.1) ... Setting up automake (1:1.11.1-1ubuntu1) ... update-alternatives: using /usr/bin/automake-1.11 to provide /usr/bin/automake (automake) in auto mode. Setting up html2text (1.3.2a-15) ... Setting up libcroco3 (0.6.2-1) ... Setting up libunistring0 (0.9.3-4) ... Setting up gettext (0.18.1.1-3ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu1) ... Setting up debhelper (8.1.6ubuntu1) ... Setting up fdupes (1.50-PR2-3) ... Setting up intltool (0.41.1-1) ... Setting up dh-translations (97) ... Setting up python-scour (0.25+bzr207-2.1) ... Setting up cdbs (0.4.93ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.13-2ubuntu1 make_3.81-8ubuntu1 dpkg-dev_1.16.0~ubuntu8 gcc-4.6_4.6.0-6ubuntu3 g++-4.6_4.6.0-6ubuntu3 binutils_2.21.51.20110421-0ubuntu6 libstdc++6_4.6.0-6ubuntu3 libstdc++6-4.6-dev_4.6.0-6ubuntu3 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Fri Jan 14 08:05:42 2011 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./fastlink_4.1P-fix95-2.dsc dpkg-source: info: extracting fastlink in fastlink-4.1P-fix95 dpkg-source: info: unpacking fastlink_4.1P-fix95.orig.tar.gz dpkg-source: info: unpacking fastlink_4.1P-fix95-2.debian.tar.gz dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor): dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor): -Wl,-Bsymbolic-functions dpkg-buildpackage: source package fastlink dpkg-buildpackage: source version 4.1P-fix95-2 dpkg-source --before-build fastlink-4.1P-fix95 dpkg-buildpackage: host architecture armel /usr/bin/fakeroot debian/rules clean test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install cd 4.1P/src; make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" -k clean make[1]: Entering directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' rm -f *.o make[1]: Leaving directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' dh_clean cd 4.1P/src; make allclean make[1]: Entering directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' rm -f *.o rm -f \ parilcominputcode.o parilcomlike.o parilcommoncode.o parilcompar.o parilcomrec.o parilgetvect.o parilink.o parilinputcode.o pariliostuff.o parilmodified.o pariloldnuclear.o parmlcheck.o parmlcominputcode.o parmlcomlike.o parmlcommoncode.o parmlcomoutput.o parmlcompar.o parmlcomrec.o parmlgetvect.o parmlink.o parmlinputcode.o parmliostuff.o parmlmodified.o parmloldnuclear.o parmloutbuff.o parmlstrbuff.o parlicheck.o parlicominputcode.o parlicomlike.o parlicommoncode.o parlicomoutput.o parlicompar.o parlicomrec.o parligetvect.o parliinputcode.o parliiostuff.o parlimodified.o parlinkmap.o parlioldnuclear.o parlioutbuff.o parlistrbuff.o \ .//*.atm .//*.udp .//*.p4 rm -f .//lodscore .//ilink .//linkmap .//mlink .//slowlodscore .//slowilink .//slowlinkmap .//slowmlink .//ofm .//unknown make[1]: Leaving directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' debian/rules build test -x debian/rules mkdir -p "." cd 4.1P/src; make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" make[1]: Entering directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' gcc -g -O2 -g -O2 -Wall -DLODSCORE -c iostuff.c -o loiostuff.o iostuff.c: In function 'check_constants': iostuff.c:100:13: warning: unused variable 'l' [-Wunused-variable] iostuff.c: In function 'read_till_blank_line': iostuff.c:273:1: warning: no return statement in function returning non-void [-Wreturn-type] iostuff.c: In function 'init_ped_loc_all': iostuff.c:379:15: warning: variable 'templocus' set but not used [-Wunused-but-set-variable] iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] iostuff.c: In function 'check_constants': iostuff.c:162:72: warning: 'worst_ped' may be used uninitialized in this function [-Wuninitialized] iostuff.c: In function 'adjust_alleles': iostuff.c:517:31: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wuninitialized] gcc -g -O2 -g -O2 -Wall -DLODSCORE -c check.c -o locheck.o check.c: In function 'recoveryErrorHelp': check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DLODSCORE -c comrec.c -o locomrec.o gcc -g -O2 -g -O2 -Wall -DLODSCORE -c logetvect.c -o logetvect.o In file included from logetvect.c:85:0: comgetvect.c: In function 'prior': comgetvect.c:65:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:68:6: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:100:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:103:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:108:4: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:112:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c: In function 'quanval_': comgetvect.c:881:15: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] comgetvect.c: In function 'aff_': comgetvect.c:960:15: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -DLODSCORE -c loinputcode.c -o loinputcode.o loinputcode.c: In function 'readloci': loinputcode.c:1615:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1633:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1643:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1648:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1655:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1700:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1708:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1710:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1716:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1722:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'gettheta': loinputcode.c:1594:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1597:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'getlocus': loinputcode.c:1472:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1500:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1503:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1527:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1577:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'getbin': loinputcode.c:1296:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1313:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1318:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'getpen': loinputcode.c:1347:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1359:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1368:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1382:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1389:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'getquan': loinputcode.c:1408:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1420:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1425:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1433:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1439:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1443:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readped': loinputcode.c:1185:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1206:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1217:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1235:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1238:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'getind': loinputcode.c:1123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readnumber': loinputcode.c:947:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readbin': loinputcode.c:920:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readquan': loinputcode.c:1032:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1041:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1053:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readaff': loinputcode.c:996:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c:1011:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loinputcode.c: In function 'readped': loinputcode.c:982:18: warning: 'allsecond' may be used uninitialized in this function [-Wuninitialized] loinputcode.c:941:17: note: 'allsecond' was declared here gcc -g -O2 -g -O2 -Wall -DLODSCORE -c looldnuclear.c -o looldnuclear.o In file included from comnuclear.c:1316:0, from looldnuclear.c:36: oldsegup.c: In function 'oldsegsexup': oldsegup.c:11:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] In file included from looldnuclear.c:36:0: comnuclear.c: In function 'msegsexdown': comnuclear.c:1324:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -c automodified.c -o automodified.o automodified.c: In function 'segsum3': automodified.c:186:20: warning: variable 'TEMPGENE2' set but not used [-Wunused-but-set-variable] automodified.c:186:8: warning: variable 'TEMPGENE1' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -DLODSCORE -c comlike.c -o locomlike.o comlike.c: In function 'recompute_haps': comlike.c:363:7: warning: unused variable 'locidx' [-Wunused-variable] comlike.c:362:16: warning: variable 'tempfgeno' set but not used [-Wunused-but-set-variable] comlike.c: In function 'computenumhaps': comlike.c:456:15: warning: unused variable 'locus2' [-Wunused-variable] comlike.c:456:7: warning: unused variable 'locus1' [-Wunused-variable] gcc -g -O2 -g -O2 -Wall -c sexmodified.c -o sexmodified.o gcc -g -O2 -g -O2 -Wall -DLODSCORE -c lodscore.c -o lodscore.o lodscore.c: In function 'main': lodscore.c:2095:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] lodscore.c:2205:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] lodscore.c: In function 'inib': lodscore.c:1379:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] lodscore.c: In function 'gemini': lodscore.c:1614:17: warning: array subscript is below array bounds [-Warray-bounds] lodscore.c:1614:28: warning: array subscript is below array bounds [-Warray-bounds] lodscore.c:1614:6: warning: array subscript is below array bounds [-Warray-bounds] lodscore.c:1720:34: warning: 'jk' may be used uninitialized in this function [-Wuninitialized] lodscore.c:1694:24: note: 'jk' was declared here lodscore.c:1720:26: warning: 'ii' may be used uninitialized in this function [-Wuninitialized] lodscore.c:1694:20: note: 'ii' was declared here lodscore.c:1720:12: warning: 'ik' may be used uninitialized in this function [-Wuninitialized] lodscore.c:1694:16: note: 'ik' was declared here gcc -g -O2 -g -O2 -Wall loiostuff.o locheck.o locomrec.o logetvect.o loinputcode.o looldnuclear.o automodified.o locomlike.o sexmodified.o lodscore.o -o .//lodscore -lm locheck.o: In function `gets': /usr/include/bits/stdio2.h:229: warning: the `gets' function is dangerous and should not be used. gcc -g -O2 -g -O2 -Wall -DILINK -c iostuff.c -o iliostuff.o iostuff.c: In function 'read_till_blank_line': iostuff.c:273:1: warning: no return statement in function returning non-void [-Wreturn-type] iostuff.c: In function 'init_ped_loc_all': iostuff.c:379:15: warning: variable 'templocus' set but not used [-Wunused-but-set-variable] iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wuninitialized] iostuff.c: In function 'adjust_alleles': iostuff.c:517:31: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wuninitialized] gcc -g -O2 -g -O2 -Wall -DILINK -c check.c -o ilcheck.o check.c: In function 'recoveryErrorHelp': check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DILINK -c cominputcode.c -o ilcominputcode.o cominputcode.c: In function 'readped': cominputcode.c:1544:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'read_loop_file': cominputcode.c:933:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1226:18: warning: 'allsecond' may be used uninitialized in this function [-Wuninitialized] cominputcode.c:1186:17: note: 'allsecond' was declared here gcc -g -O2 -g -O2 -Wall -DILINK -c comrec.c -o ilcomrec.o gcc -g -O2 -g -O2 -Wall -DILINK -c ilgetvect.c -o ilgetvect.o In file included from ilgetvect.c:87:0: comgetvect.c: In function 'prior': comgetvect.c:71:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] gcc -g -O2 -g -O2 -Wall -DILINK -c ilinputcode.c -o ilinputcode.o ilinputcode.c: In function 'readloci': ilinputcode.c:395:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:422:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:439:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:452:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:474:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:475:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:489:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:496:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c: In function 'setiterate': ilinputcode.c:178:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilinputcode.c:358:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DILINK -c iloldnuclear.c -o iloldnuclear.o In file included from comnuclear.c:1316:0, from iloldnuclear.c:37: oldsegup.c: In function 'oldsegsexup': oldsegup.c:11:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] In file included from iloldnuclear.c:37:0: comnuclear.c: In function 'msegsexdown': comnuclear.c:1324:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -c comlike.c -o comlike.o comlike.c: In function 'recompute_haps': comlike.c:362:16: warning: variable 'tempfgeno' set but not used [-Wunused-but-set-variable] comlike.c: In function 'find_loopbreaker_genotypes': comlike.c:1434:16: warning: 'temploopmax' may be used uninitialized in this function [-Wuninitialized] gcc -g -O2 -g -O2 -Wall -DILINK -c commoncode.c -o ilcommoncode.o commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DILINK -c ilink.c -o ilink.o ilink.c: In function 'inib': ilink.c:1560:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] ilink.c: In function 'gemini': ilink.c:2243:17: warning: array subscript is below array bounds [-Warray-bounds] ilink.c:2243:28: warning: array subscript is below array bounds [-Warray-bounds] ilink.c:2243:6: warning: array subscript is below array bounds [-Warray-bounds] gcc -g -O2 -g -O2 -Wall iliostuff.o ilcheck.o ilcominputcode.o ilcomrec.o ilgetvect.o ilinputcode.o iloldnuclear.o automodified.o comlike.o sexmodified.o ilcommoncode.o ilink.o -o .//ilink -lm ilcheck.o: In function `gets': /usr/include/bits/stdio2.h:229: warning: the `gets' function is dangerous and should not be used. gcc -g -O2 -g -O2 -Wall -DLINKMAP -c iostuff.c -o liiostuff.o iostuff.c: In function 'read_till_blank_line': iostuff.c:273:1: warning: no return statement in function returning non-void [-Wreturn-type] iostuff.c: In function 'init_ped_loc_all': iostuff.c:379:15: warning: variable 'templocus' set but not used [-Wunused-but-set-variable] iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wuninitialized] iostuff.c: In function 'adjust_alleles': iostuff.c:517:31: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wuninitialized] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c check.c -o licheck.o check.c: In function 'recoveryErrorHelp': check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c cominputcode.c -o licominputcode.o cominputcode.c: In function 'readped': cominputcode.c:1544:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'read_loop_file': cominputcode.c:933:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1226:18: warning: 'allsecond' may be used uninitialized in this function [-Wuninitialized] cominputcode.c:1186:17: note: 'allsecond' was declared here gcc -g -O2 -g -O2 -Wall -DLINKMAP -c comrec.c -o licomrec.o gcc -g -O2 -g -O2 -Wall -DLINKMAP -c ligetvect.c -o ligetvect.o In file included from ligetvect.c:86:0: comgetvect.c: In function 'prior': comgetvect.c:71:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c liinputcode.c -o liinputcode.o liinputcode.c: In function 'readloci': liinputcode.c:25:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:53:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:70:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:83:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:105:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:106:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:120:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:127:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] liinputcode.c:145:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c lioldnuclear.c -o lioldnuclear.o In file included from comnuclear.c:1316:0, from lioldnuclear.c:35: oldsegup.c: In function 'oldsegsexup': oldsegup.c:11:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] In file included from lioldnuclear.c:35:0: comnuclear.c: In function 'msegsexdown': comnuclear.c:1324:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c commoncode.c -o licommoncode.o commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DLINKMAP -c linkmap.c -o linkmap.o linkmap.c: In function 'iterpeds': linkmap.c:310:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:314:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:351:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:354:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:358:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:361:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:365:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] linkmap.c:368:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall liiostuff.o licheck.o licominputcode.o licomrec.o ligetvect.o liinputcode.o lioldnuclear.o automodified.o comlike.o sexmodified.o licommoncode.o linkmap.o -o .//linkmap -lm licheck.o: In function `gets': /usr/include/bits/stdio2.h:229: warning: the `gets' function is dangerous and should not be used. gcc -g -O2 -g -O2 -Wall -DMLINK -c iostuff.c -o mliostuff.o iostuff.c: In function 'read_till_blank_line': iostuff.c:273:1: warning: no return statement in function returning non-void [-Wreturn-type] iostuff.c: In function 'init_ped_loc_all': iostuff.c:379:15: warning: variable 'templocus' set but not used [-Wunused-but-set-variable] iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wuninitialized] iostuff.c: In function 'adjust_alleles': iostuff.c:517:31: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wuninitialized] gcc -g -O2 -g -O2 -Wall -DMLINK -c check.c -o mlcheck.o check.c: In function 'recoveryErrorHelp': check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DMLINK -c cominputcode.c -o mlcominputcode.o cominputcode.c: In function 'readped': cominputcode.c:1544:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'read_loop_file': cominputcode.c:933:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cominputcode.c: In function 'readped': cominputcode.c:1226:18: warning: 'allsecond' may be used uninitialized in this function [-Wuninitialized] cominputcode.c:1186:17: note: 'allsecond' was declared here gcc -g -O2 -g -O2 -Wall -DMLINK -c comrec.c -o mlcomrec.o gcc -g -O2 -g -O2 -Wall -DMLINK -c mlgetvect.c -o mlgetvect.o In file included from mlgetvect.c:84:0: comgetvect.c: In function 'prior': comgetvect.c:71:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] gcc -g -O2 -g -O2 -Wall -DMLINK -c mlinputcode.c -o mlinputcode.o mlinputcode.c: In function 'readloci': mlinputcode.c:23:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:51:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:68:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:81:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:103:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:104:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:118:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:125:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mlinputcode.c:143:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DMLINK -c mloldnuclear.c -o mloldnuclear.o In file included from comnuclear.c:1316:0, from mloldnuclear.c:34: oldsegup.c: In function 'oldsegsexup': oldsegup.c:11:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] In file included from mloldnuclear.c:34:0: comnuclear.c: In function 'msegsexdown': comnuclear.c:1324:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] gcc -g -O2 -g -O2 -Wall -DMLINK -c commoncode.c -o mlcommoncode.o commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall -DMLINK -c mlink.c -o mlink.o mlink.c: In function 'iterpeds': mlink.c:283:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] mlink.c:291:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] mlink.c: In function 'ipedLoop': mlink.c:500:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -g -O2 -g -O2 -Wall mliostuff.o mlcheck.o mlcominputcode.o mlcomrec.o mlgetvect.o mlinputcode.o mloldnuclear.o automodified.o comlike.o sexmodified.o mlcommoncode.o mlink.o -o .//mlink -lm mlcheck.o: In function `gets': /usr/include/bits/stdio2.h:229: warning: the `gets' function is dangerous and should not be used. gcc -O unknown.c -c -o unknown.o unknown.c: In function 'malloc_err': unknown.c:149:5: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'int' [-Wformat] unknown.c: In function 'prelim_iterpeds': unknown.c:4359:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat] unknown.c: In function 'initunknown': unknown.c:4596:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readloci': unknown.c:2819:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2833:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2837:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'respond': unknown.c:824:8: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'main_new_second': unknown.c:5170:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:5176:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readped': unknown.c:2511:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2515:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2556:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'main_new_first': unknown.c:5039:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:5047:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'main_old': unknown.c:4694:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4699:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'testhets': unknown.c:4455:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4457:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4465:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4468:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4472:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4474:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4476:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4479:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4482:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4484:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4489:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4491:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4493:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4497:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4502:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4509:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4512:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4516:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4522:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4524:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4527:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4533:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4536:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4539:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4548:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:4551:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getlocus': unknown.c:2741:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2771:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2772:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2775:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2779:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2783:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2805:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getbin': unknown.c:2687:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2701:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2706:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getpen': unknown.c:2636:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2648:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2657:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2665:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2671:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getquan': unknown.c:2615:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2622:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getrest': unknown.c:2443:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'getind': unknown.c:2383:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readquan': unknown.c:2313:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2323:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2335:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readaff': unknown.c:2276:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:2291:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readnumber': unknown.c:2235:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'readbin': unknown.c:2216:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'read_till_blank_line': unknown.c:437:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] unknown.c: In function 'adjustIds': unknown.c:258:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:385:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] unknown.c:409:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] gcc -O loopbrk.c -c -o loopbrk.o loopbrk.c: In function 'loopbreakers2': loopbrk.c:2391:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:2397:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'loopbreakers': loopbrk.c:2329:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:2335:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'detectLoopedPedigrees': loopbrk.c:2267:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'computeLineLength': loopbrk.c:2083:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'readped_with_loop': loopbrk.c:1498:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1503:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1507:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1530:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'read_write_ped_non_loop': loopbrk.c:1182:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1185:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1193:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'Read_homoz_heteroz': loopbrk.c:1130:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:1136:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c: In function 'open_files': loopbrk.c:108:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] loopbrk.c:126:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] gcc -O loopbrk.o unknown.o -o .//unknown -lm make[1]: Leaving directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' touch debian/stamp-makefile-build DEB_MAKE_CHECK_TARGET unset, not running checks /usr/bin/fakeroot debian/rules binary-arch test -x debian/rules dh_testroot dh_prep dh_installdirs -A mkdir -p "." DEB_MAKE_CHECK_TARGET unset, not running checks DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target Adding cdbs dependencies to debian/fastlink.substvars dh_installdirs -pfastlink dh_installdocs -pfastlink ./README dh_installexamples -pfastlink dh_installman -pfastlink dh_installinfo -pfastlink dh_installmenu -pfastlink dh_installcron -pfastlink dh_installinit -pfastlink Duplicate specification "O=s" for option "O" dh_installdebconf -pfastlink dh_installemacsen -pfastlink dh_installcatalogs -pfastlink dh_installpam -pfastlink dh_installlogrotate -pfastlink dh_installlogcheck -pfastlink dh_installgsettings -pfastlink dh_installchangelogs -pfastlink dh_installudev -pfastlink dh_lintian -pfastlink dh_bugfiles -pfastlink dh_install -pfastlink dh_link -pfastlink dh_installmime -pfastlink dh_strip -pfastlink dh_strip debug symbol extraction: all non-arch-all packages for this build platform armel: fastlink dh_strip debug symbol extraction: packages to act on: fastlink dh_strip debug symbol extraction: ignored packages: dpkg-deb: building package `fastlink-dbgsym' in `../fastlink-dbgsym_4.1P-fix95-2_armel.ddeb'. dh_compress -pfastlink dh_fixperms -pfastlink dh_makeshlibs -pfastlink dh_installdeb -pfastlink dh_perl -pfastlink dh_shlibdeps -pfastlink dh_gencontrol -pfastlink # only call dh_scour for packages in main if grep -q '^Component:[[:space:]]*main' /CurrentlyBuilding 2>/dev/null; then dh_scour -pfastlink ; fi dh_link -p fastlink dh_md5sums -pfastlink dh_builddeb -pfastlink INFO: pkgstriptranslations version 97 pkgstriptranslations: processing control file: ./debian/fastlink/DEBIAN/control, package fastlink, directory ./debian/fastlink ./debian/fastlink/usr/share/applications/ilink.desktop: does not have gettext domain, not stripping ./debian/fastlink/usr/share/applications/mlink.desktop: does not have gettext domain, not stripping ./debian/fastlink/usr/share/applications/lodscore.desktop: does not have gettext domain, not stripping ./debian/fastlink/usr/share/applications/linkmap.desktop: does not have gettext domain, not stripping ./debian/fastlink/usr/share/applications/unknown.desktop: does not have gettext domain, not stripping pkgstriptranslations: fastlink does not contain translations, skipping pkgstriptranslations: no translation files, not creating tarball pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/fastlink/DEBIAN/control, package fastlink, directory debian/fastlink pkgstripfiles: Truncating changelog to topmost ten records dpkg-deb: warning: 'debian/fastlink/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `fastlink' in `../fastlink_4.1P-fix95-2_armel.deb'. dpkg-genchanges -B -mUbuntu/armel Build Daemon >../fastlink_4.1P-fix95-2_armel.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build fastlink-4.1P-fix95 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20110511-1922 Publishing debug debs. chroot-autobuild/build/buildd/fastlink_4.1P-fix95-2_armel.deb: new debian package, version 2.0. size 388794 bytes: control archive= 2047 bytes. 1456 bytes, 31 lines control 2467 bytes, 36 lines md5sums Package: fastlink Version: 4.1P-fix95-2 Architecture: armel Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 732 Depends: libc6 (>= 2.7) Suggests: fastlink-doc Section: science Priority: optional Homepage: http://www.ncbi.nlm.nih.gov/CBBResearch/Schaffer/fastlink.html Description: A faster version of pedigree programs of Linkage Genetic linkage analysis is a statistical technique used to map genes and find the approximate location of disease genes. There was a standard software package for genetic linkage called LINKAGE. FASTLINK is a significantly modified and improved version of the main programs of LINKAGE that runs much faster sequentially, can run in parallel, allows the user to recover gracefully from a computer crash, and provides abundant new documentation. FASTLINK has been used in over 1000 published genetic linkage studies. . This package contains the following programs: ilink: GEMINI optimization procedure to find a locally optimal value of the theta vector of recombination fractions linkmap: calculates location scores of one locus against a fixed map of other loci lodscore: compares likelihoods at locally optimal theta mlink: calculates lod scores and risk with two of more loci unknown: identify possible genotypes for unknowns chroot-autobuild/build/buildd/fastlink_4.1P-fix95-2_armel.deb: tar: Record size = 16 blocks drwxr-xr-x root/root 0 2011-05-11 19:21 ./ drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/ drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/bin/ -rwxr-xr-x root/root 104060 2011-05-11 19:21 ./usr/bin/linkmap -rwxr-xr-x root/root 120440 2011-05-11 19:21 ./usr/bin/ilink -rwxr-xr-x root/root 99960 2011-05-11 19:21 ./usr/bin/mlink -rwxr-xr-x root/root 112248 2011-05-11 19:21 ./usr/bin/lodscore -rwxr-xr-x root/root 67236 2011-05-11 19:21 ./usr/bin/unknown drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/ drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/applications/ -rw-r--r-- root/root 444 2009-11-19 07:51 ./usr/share/applications/ilink.desktop -rw-r--r-- root/root 312 2009-11-19 07:51 ./usr/share/applications/mlink.desktop -rw-r--r-- root/root 326 2009-11-19 07:51 ./usr/share/applications/lodscore.desktop -rw-r--r-- root/root 370 2009-11-19 07:51 ./usr/share/applications/linkmap.desktop -rw-r--r-- root/root 310 2009-11-19 07:51 ./usr/share/applications/unknown.desktop drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/doc/ drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/doc/fastlink/ -rw-r--r-- root/root 2856 1999-07-03 19:08 ./usr/share/doc/fastlink/README.memory -rw-r--r-- root/root 9847 1999-07-03 19:08 ./usr/share/doc/fastlink/README.trouble.gz -rw-r--r-- root/root 3140 1999-07-03 19:08 ./usr/share/doc/fastlink/README.scaling -rw-r--r-- root/root 3007 1999-07-03 19:08 ./usr/share/doc/fastlink/README.TreadMarks.gz -rw-r--r-- root/root 687 2008-11-17 06:38 ./usr/share/doc/fastlink/README.Debian -rw-r--r-- root/root 2244 1999-07-03 19:08 ./usr/share/doc/fastlink/README.time -rw-r--r-- root/root 3075 1999-07-03 19:08 ./usr/share/doc/fastlink/README.parallel.gz -rw-r--r-- root/root 2236 2011-05-11 19:22 ./usr/share/doc/fastlink/changelog.Debian.gz -rw-r--r-- root/root 2472 1999-07-03 19:08 ./usr/share/doc/fastlink/README.ILINK.gz -rw-r--r-- root/root 2460 1999-07-03 19:08 ./usr/share/doc/fastlink/README.constants.gz -rw-r--r-- root/root 1404 2011-01-14 07:40 ./usr/share/doc/fastlink/copyright -rw-r--r-- root/root 1699 1999-07-03 19:08 ./usr/share/doc/fastlink/README.mapfun.gz -rw-r--r-- root/root 13988 2008-02-28 14:29 ./usr/share/doc/fastlink/README.updates.gz -rw-r--r-- root/root 2895 1999-07-03 19:08 ./usr/share/doc/fastlink/README.unknown -rw-r--r-- root/root 606 1999-08-19 13:48 ./usr/share/doc/fastlink/README.Linux -rw-r--r-- root/root 6648 1999-07-03 19:08 ./usr/share/doc/fastlink/README.checkpoint.gz -rw-r--r-- root/root 2569 2001-12-18 18:00 ./usr/share/doc/fastlink/README.bugreport -rw-r--r-- root/root 1894 1999-07-03 19:08 ./usr/share/doc/fastlink/README.allele.gz -rw-r--r-- root/root 6990 1999-07-03 19:08 ./usr/share/doc/fastlink/README.p4.gz -rw-r--r-- root/root 3857 1999-09-17 00:39 ./usr/share/doc/fastlink/README.gz -rw-r--r-- root/root 17206 2008-11-17 06:38 ./usr/share/doc/fastlink/fastlink.html drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/man/ drwxr-xr-x root/root 0 2011-05-11 19:21 ./usr/share/man/man1/ -rw-r--r-- root/root 792 2011-05-11 19:21 ./usr/share/man/man1/lodscore.1.gz -rw-r--r-- root/root 612 2011-05-11 19:21 ./usr/share/man/man1/mlink.1.gz -rw-r--r-- root/root 621 2011-05-11 19:21 ./usr/share/man/man1/linkmap.1.gz -rw-r--r-- root/root 1004 2011-05-11 19:21 ./usr/share/man/man1/unknown.1.gz -rw-r--r-- root/root 1272 2011-05-11 19:21 ./usr/share/man/man1/ilink.1.gz fastlink_4.1P-fix95-2_armel.changes: Format: 1.8 Date: Fri, 14 Jan 2011 08:40:14 +0100 Source: fastlink Binary: fastlink fastlink-doc Architecture: armel Version: 4.1P-fix95-2 Distribution: oneiric Urgency: low Maintainer: Ubuntu/armel Build Daemon Changed-By: Andreas Tille Description: fastlink - A faster version of pedigree programs of Linkage fastlink-doc - Some papers about fastlink Changes: fastlink (4.1P-fix95-2) unstable; urgency=low . * debian/copyright: Fixed source download location * debian/control: - Standards-Version: 3.9.1 - Fix spelling of Debian Med - debhelper (>= 7) - Depends: ${misc:Depends} * debian/compat: 7 * debian/watch: use GZIP="--best --no-name" to make sure the resulting tarball will be identically * debian/source/format: 3.0 (quilt) * debian/rules: remove dh_desktop call Checksums-Sha1: 441ce7559a79fac78b4aa17c7d15cdc5db0f4c0a 388794 fastlink_4.1P-fix95-2_armel.deb Checksums-Sha256: b67bb7f23c4774db65c8db76962ab410d3b17d6abf1829711e98c07eb3ffd0d0 388794 fastlink_4.1P-fix95-2_armel.deb Files: 81ef005a5cf70460f90689fbe6590248 388794 science optional fastlink_4.1P-fix95-2_armel.deb ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/fastlink-4.1P-fix95 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --purge groff-base mime-support m4 gettext file libhtml-parser-perl intltool libwww-perl liburi-perl libhtml-tree-perl autotools-dev po-debconf dh-translations libxml-parser-perl libcroco3 libhtml-tagset-perl libxml2 automake python-scour man-db intltool-debian python2.7 cdbs html2text gettext-base debhelper libunistring0 python libmagic1 libpipeline1 libexpat1 libsqlite3-0 bsdmainutils fdupes autoconf (Reading database ... 16583 files and directories currently installed.) Removing cdbs ... Removing fdupes ... Removing dh-translations ... Removing python-scour ... Removing debhelper ... Removing python ... Purging configuration files for python ... Removing intltool ... Removing po-debconf ... Removing libxml-parser-perl ... Removing automake ... Removing man-db ... Purging configuration files for man-db ... Removing catpages as well as /var/cache/man hierarchy. Removing intltool-debian ... Removing python2.7 ... Purging configuration files for python2.7 ... Removing html2text ... Purging configuration files for html2text ... Removing libpipeline1 ... Purging configuration files for libpipeline1 ... Removing libexpat1 ... Purging configuration files for libexpat1 ... Removing libsqlite3-0 ... Purging configuration files for libsqlite3-0 ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing autoconf ... Purging configuration files for autoconf ... Removing groff-base ... Purging configuration files for groff-base ... Removing mime-support ... Purging configuration files for mime-support ... Removing m4 ... Removing gettext ... Removing file ... Removing libwww-perl ... Removing libhtml-tree-perl ... Removing autotools-dev ... Removing libcroco3 ... Purging configuration files for libcroco3 ... Removing libxml2 ... Purging configuration files for libxml2 ... Removing gettext-base ... Removing libunistring0 ... Purging configuration files for libunistring0 ... Removing libmagic1 ... Purging configuration files for libmagic1 ... Removing libhtml-parser-perl ... Removing liburi-perl ... Removing libhtml-tagset-perl ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place ****************************************************************************** Finished at 20110511-1922 Build needed 00:06:15, 8988k disk space Can't open average time db /var/debbuild/avg-build-times Can't open average space db /var/debbuild/avg-build-space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', 'b36090a90e0da70e03e2f653d19c675c2ed821dd'] Scanning for processes to kill in build /home/buildd/build-b36090a90e0da70e03e2f653d19c675c2ed821dd/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'b36090a90e0da70e03e2f653d19c675c2ed821dd'] Unmounting chroot for build b36090a90e0da70e03e2f653d19c675c2ed821dd... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'b36090a90e0da70e03e2f653d19c675c2ed821dd'] Removing build b36090a90e0da70e03e2f653d19c675c2ed821dd