RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux denneed04 3.13.0-8-generic #28-Ubuntu SMP Tue Feb 11 17:58:07 UTC 2014 ppc64le Buildd toolchain package versions: launchpad-buildd_121~0.IS.08.04.0 python-lpbuildd_121~0.IS.08.04.0 dpkg-dev_1.17.5ubuntu4. Syncing the system clock with the buildd NTP service... 18 Feb 14:19:56 ntpdate[7130]: adjust time server 10.211.37.1 offset 0.000003 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-5598142', '/home/buildd/filecache-default/1418c9e5f0eb143d9f77e4665c5b7c89c42011cc'] Unpacking chroot for build PACKAGEBUILD-5598142 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-5598142'] Mounting chroot for build PACKAGEBUILD-5598142 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-5598142', 'deb http://ftpmaster.internal/ubuntu trusty main universe'] Overriding sources.list in build-PACKAGEBUILD-5598142 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-5598142', 'ppc64el'] Updating debian chroot for build PACKAGEBUILD-5598142 Ign http://ftpmaster.internal trusty InRelease Ign http://archive-team.internal trusty InRelease Ign http://ftpmaster.internal trusty InRelease Ign http://archive-team.internal trusty Release.gpg Get:1 http://ftpmaster.internal trusty Release.gpg [933 B] Hit http://archive-team.internal trusty Release Get:2 http://ftpmaster.internal trusty Release.gpg [933 B] Ign http://archive-team.internal trusty/main ppc64el Packages/DiffIndex Get:3 http://ftpmaster.internal trusty Release [58.5 kB] Get:4 http://ftpmaster.internal trusty Release [58.5 kB] Get:5 http://ftpmaster.internal trusty/main ppc64el Packages [1219 kB] Ign http://archive-team.internal trusty/main Translation-en Hit http://archive-team.internal trusty/main ppc64el Packages Get:6 http://ftpmaster.internal trusty/universe ppc64el Packages [3635 kB] Get:7 http://ftpmaster.internal trusty/main Translation-en [760 kB] Get:8 http://ftpmaster.internal trusty/universe Translation-en [4058 kB] Get:9 http://ftpmaster.internal trusty/main ppc64el Packages [1226 kB] Get:10 http://ftpmaster.internal trusty/universe ppc64el Packages [5005 kB] Get:11 http://ftpmaster.internal trusty/main Translation-en [760 kB] Get:12 http://ftpmaster.internal trusty/universe Translation-en [4056 kB] Fetched 20.8 MB in 23s (902 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: gcc-4.9-base libgcc1 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 43.4 kB of archives. After this operation, 1024 B of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.9-base ppc64el 4.9-20140217-0ubuntu1 [14.3 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libgcc1 ppc64el 1:4.9-20140217-0ubuntu1 [29.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 43.4 kB in 0s (88.9 kB/s) (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../gcc-4.9-base_4.9-20140217-0ubuntu1_ppc64el.deb ... Unpacking gcc-4.9-base:ppc64el (4.9-20140217-0ubuntu1) over (4.9-20140213-0ubuntu2) ... Setting up gcc-4.9-base:ppc64el (4.9-20140217-0ubuntu1) ... (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../libgcc1_1%3a4.9-20140217-0ubuntu1_ppc64el.deb ... Unpacking libgcc1:ppc64el (1:4.9-20140217-0ubuntu1) over (1:4.9-20140213-0ubuntu2) ... Setting up libgcc1:ppc64el (1:4.9-20140217-0ubuntu1) ... Processing triggers for libc-bin (2.18-0ubuntu7) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-5598142', 'ppc64el', 'trusty', '--nolog', '--batch', '--archive=ubuntu', '--dist=trusty', '--purpose=PRIMARY', '--architecture=ppc64el', '--comp=universe', 'fastlink_4.1P-fix95-3.dsc'] Initiating build PACKAGEBUILD-5598142 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.13.0-8-generic #28-Ubuntu SMP Tue Feb 11 17:58:07 UTC 2014 ppc64le Automatic build of fastlink_4.1P-fix95-3 on denneed04 by sbuild/ppc64el 1.170.5 Build started at 20140218-1420 ****************************************************************************** fastlink_4.1P-fix95-3.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: cdbs, debhelper (>= 8) 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: apparmor-easyprof autoconf automake autotools-dev bsdmainutils ca-certificates dh-apparmor dh-python dh-translations file gettext gettext-base groff-base intltool intltool-debian libasprintf0c2 libcroco3 libencode-locale-perl libexpat1 libfile-listing-perl libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libio-html-perl libio-socket-ssl-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmpdec2 libnet-http-perl libnet-ssleay-perl libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libsigsegv2 libssl1.0.0 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libxml-parser-perl libxml2 m4 man-db mime-support netbase openssl po-debconf python python-minimal python-scour python2.7 python2.7-minimal python3 python3-minimal python3.3 python3.3-minimal Suggested packages: autoconf2.13 autoconf-archive gnu-standards autoconf-doc libtool wamerican wordlist whois vacation devscripts dh-make gettext-doc groff libdata-dump-perl libcrypt-ssleay-perl libauthen-ntlm-perl less www-browser libmail-box-perl python-doc python-tk python-rsvg python-cairo python2.7-doc binfmt-support python3-doc python3-tk python3.3-doc Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info libhtml-format-perl libio-socket-inet6-perl libio-socket-ip-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl xml-core libmail-sendmail-perl The following NEW packages will be installed: apparmor-easyprof autoconf automake autotools-dev bsdmainutils ca-certificates cdbs debhelper dh-apparmor dh-python dh-translations file gettext gettext-base groff-base intltool intltool-debian libasprintf0c2 libcroco3 libencode-locale-perl libexpat1 libfile-listing-perl libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libio-html-perl libio-socket-ssl-perl liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic1 libmpdec2 libnet-http-perl libnet-ssleay-perl libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libsigsegv2 libssl1.0.0 libunistring0 liburi-perl libwww-perl libwww-robotrules-perl libxml-parser-perl libxml2 m4 man-db mime-support netbase openssl po-debconf python python-minimal python-scour python2.7 python2.7-minimal python3 python3-minimal python3.3 python3.3-minimal 0 upgraded, 68 newly installed, 0 to remove and 0 not upgraded. Need to get 17.4 MB of archives. After this operation, 74.5 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main libexpat1 ppc64el 2.1.0-4ubuntu1 [79.5 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libmagic1 ppc64el 1:5.14-2ubuntu1 [194 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main libssl1.0.0 ppc64el 1.0.1f-1ubuntu1 [762 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-minimal ppc64el 3.3.4-1 [393 kB] Get:5 http://ftpmaster.internal/ubuntu/ trusty/main mime-support all 3.54ubuntu1 [31.7 kB] Get:6 http://ftpmaster.internal/ubuntu/ trusty/main libmpdec2 ppc64el 2.4.0-6 [83.9 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-stdlib ppc64el 3.3.4-1 [1911 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main python3.3-minimal ppc64el 3.3.4-1 [1119 kB] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main libasprintf0c2 ppc64el 0.18.3.1-1ubuntu2 [6748 B] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main libglib2.0-0 ppc64el 2.39.4-0ubuntu1 [982 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libpipeline1 ppc64el 1.2.6-2 [22.6 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main libxml2 ppc64el 2.9.1+dfsg1-3ubuntu3 [601 kB] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main groff-base ppc64el 1.22.2-5 [1249 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main bsdmainutils ppc64el 9.0.5ubuntu1 [173 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main man-db ppc64el 2.6.6-1 [847 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libcroco3 ppc64el 0.6.8-2ubuntu1 [75.4 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main libsigsegv2 ppc64el 2.10-2 [13.8 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main libunistring0 ppc64el 0.9.3-5ubuntu3 [262 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty/main libpython2.7-minimal ppc64el 2.7.6-5 [307 kB] Get:20 http://ftpmaster.internal/ubuntu/ trusty/main python2.7-minimal ppc64el 2.7.6-5 [932 kB] Get:21 http://ftpmaster.internal/ubuntu/ trusty/main python3.3 ppc64el 3.3.4-1 [133 kB] Get:22 http://ftpmaster.internal/ubuntu/ trusty/main python3-minimal ppc64el 3.3.3-1 [23.5 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty/main libpython3-stdlib ppc64el 3.3.3-1 [7104 B] Get:24 http://ftpmaster.internal/ubuntu/ trusty/main python3 ppc64el 3.3.3-1 [8668 B] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main dh-python all 1.20140128-1ubuntu2 [51.0 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main file ppc64el 1:5.14-2ubuntu1 [19.2 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main netbase all 5.2 [12.9 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty/main openssl ppc64el 1.0.1f-1ubuntu1 [479 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main ca-certificates all 20130906ubuntu1 [180 kB] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main gettext-base ppc64el 0.18.3.1-1ubuntu2 [47.2 kB] Get:31 http://ftpmaster.internal/ubuntu/ trusty/main m4 ppc64el 1.4.17-2ubuntu1 [194 kB] Get:32 http://ftpmaster.internal/ubuntu/ trusty/main autoconf all 2.69-4 [320 kB] Get:33 http://ftpmaster.internal/ubuntu/ trusty/main autotools-dev all 20130810.1 [44.3 kB] Get:34 http://ftpmaster.internal/ubuntu/ trusty/main automake all 1:1.14.1-2ubuntu1 [510 kB] Get:35 http://ftpmaster.internal/ubuntu/ trusty/main gettext ppc64el 0.18.3.1-1ubuntu2 [840 kB] Get:36 http://ftpmaster.internal/ubuntu/ trusty/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:37 http://ftpmaster.internal/ubuntu/ trusty/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:38 http://ftpmaster.internal/ubuntu/ trusty/main apparmor-easyprof all 2.8.0-0ubuntu38 [20.1 kB] Get:39 http://ftpmaster.internal/ubuntu/ trusty/main dh-apparmor all 2.8.0-0ubuntu38 [7286 B] Get:40 http://ftpmaster.internal/ubuntu/ trusty/main debhelper all 9.20131127ubuntu2 [603 kB] Get:41 http://ftpmaster.internal/ubuntu/ trusty/main liburi-perl all 1.60-1 [89.6 kB] Get:42 http://ftpmaster.internal/ubuntu/ trusty/main libencode-locale-perl all 1.03-1 [12.4 kB] Get:43 http://ftpmaster.internal/ubuntu/ trusty/main libhttp-date-perl all 6.02-1 [10.4 kB] Get:44 http://ftpmaster.internal/ubuntu/ trusty/main libfile-listing-perl all 6.04-1 [9774 B] Get:45 http://ftpmaster.internal/ubuntu/ trusty/main libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:46 http://ftpmaster.internal/ubuntu/ trusty/main libhtml-parser-perl ppc64el 3.71-1build1 [94.9 kB] Get:47 http://ftpmaster.internal/ubuntu/ trusty/main libhtml-tree-perl all 5.03-1 [215 kB] Get:48 http://ftpmaster.internal/ubuntu/ trusty/main libio-html-perl all 1.00-1 [15.7 kB] Get:49 http://ftpmaster.internal/ubuntu/ trusty/main liblwp-mediatypes-perl all 6.02-1 [21.7 kB] Get:50 http://ftpmaster.internal/ubuntu/ trusty/main libhttp-message-perl all 6.06-1 [78.7 kB] Get:51 http://ftpmaster.internal/ubuntu/ trusty/main libhttp-cookies-perl all 6.00-2 [23.3 kB] Get:52 http://ftpmaster.internal/ubuntu/ trusty/main libhttp-negotiate-perl all 6.00-2 [13.4 kB] Get:53 http://ftpmaster.internal/ubuntu/ trusty/main libnet-ssleay-perl ppc64el 1.58-1 [231 kB] Get:54 http://ftpmaster.internal/ubuntu/ trusty/main libio-socket-ssl-perl all 1.965-1ubuntu1 [73.7 kB] Get:55 http://ftpmaster.internal/ubuntu/ trusty/main libnet-http-perl all 6.06-1 [24.2 kB] Get:56 http://ftpmaster.internal/ubuntu/ trusty/main liblwp-protocol-https-perl all 6.04-2 [7330 B] Get:57 http://ftpmaster.internal/ubuntu/ trusty/main libwww-robotrules-perl all 6.01-1 [14.1 kB] Get:58 http://ftpmaster.internal/ubuntu/ trusty/main libwww-perl all 6.05-2 [146 kB] Get:59 http://ftpmaster.internal/ubuntu/ trusty/main libxml-parser-perl ppc64el 2.41-1build3 [198 kB] Get:60 http://ftpmaster.internal/ubuntu/ trusty/main intltool all 0.50.2-2 [52.0 kB] Get:61 http://ftpmaster.internal/ubuntu/ trusty/main dh-translations all 119 [21.5 kB] Get:62 http://ftpmaster.internal/ubuntu/ trusty/main libpython2.7-stdlib ppc64el 2.7.6-5 [1770 kB] Get:63 http://ftpmaster.internal/ubuntu/ trusty/main python2.7 ppc64el 2.7.6-5 [193 kB] Get:64 http://ftpmaster.internal/ubuntu/ trusty/main python-minimal ppc64el 2.7.5-5ubuntu3 [27.6 kB] Get:65 http://ftpmaster.internal/ubuntu/ trusty/main libpython-stdlib ppc64el 2.7.5-5ubuntu3 [7020 B] Get:66 http://ftpmaster.internal/ubuntu/ trusty/main python ppc64el 2.7.5-5ubuntu3 [133 kB] Get:67 http://ftpmaster.internal/ubuntu/ trusty/main python-scour all 0.26-3 [46.5 kB] Get:68 http://ftpmaster.internal/ubuntu/ trusty/main cdbs all 0.4.122ubuntu2 [42.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 17.4 MB in 23s (755 kB/s) Selecting previously unselected package libexpat1:ppc64el. (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../libexpat1_2.1.0-4ubuntu1_ppc64el.deb ... Unpacking libexpat1:ppc64el (2.1.0-4ubuntu1) ... Selecting previously unselected package libmagic1:ppc64el. Preparing to unpack .../libmagic1_1%3a5.14-2ubuntu1_ppc64el.deb ... Unpacking libmagic1:ppc64el (1:5.14-2ubuntu1) ... Selecting previously unselected package libssl1.0.0:ppc64el. Preparing to unpack .../libssl1.0.0_1.0.1f-1ubuntu1_ppc64el.deb ... Unpacking libssl1.0.0:ppc64el (1.0.1f-1ubuntu1) ... Selecting previously unselected package libpython3.3-minimal:ppc64el. Preparing to unpack .../libpython3.3-minimal_3.3.4-1_ppc64el.deb ... Unpacking libpython3.3-minimal:ppc64el (3.3.4-1) ... Selecting previously unselected package mime-support. Preparing to unpack .../mime-support_3.54ubuntu1_all.deb ... Unpacking mime-support (3.54ubuntu1) ... Selecting previously unselected package libmpdec2:ppc64el. Preparing to unpack .../libmpdec2_2.4.0-6_ppc64el.deb ... Unpacking libmpdec2:ppc64el (2.4.0-6) ... Selecting previously unselected package libpython3.3-stdlib:ppc64el. Preparing to unpack .../libpython3.3-stdlib_3.3.4-1_ppc64el.deb ... Unpacking libpython3.3-stdlib:ppc64el (3.3.4-1) ... Selecting previously unselected package python3.3-minimal. Preparing to unpack .../python3.3-minimal_3.3.4-1_ppc64el.deb ... Unpacking python3.3-minimal (3.3.4-1) ... Selecting previously unselected package libasprintf0c2:ppc64el. Preparing to unpack .../libasprintf0c2_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking libasprintf0c2:ppc64el (0.18.3.1-1ubuntu2) ... Selecting previously unselected package libglib2.0-0:ppc64el. Preparing to unpack .../libglib2.0-0_2.39.4-0ubuntu1_ppc64el.deb ... Unpacking libglib2.0-0:ppc64el (2.39.4-0ubuntu1) ... Selecting previously unselected package libpipeline1:ppc64el. Preparing to unpack .../libpipeline1_1.2.6-2_ppc64el.deb ... Unpacking libpipeline1:ppc64el (1.2.6-2) ... Selecting previously unselected package libxml2:ppc64el. Preparing to unpack .../libxml2_2.9.1+dfsg1-3ubuntu3_ppc64el.deb ... Unpacking libxml2:ppc64el (2.9.1+dfsg1-3ubuntu3) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-5_ppc64el.deb ... Unpacking groff-base (1.22.2-5) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5ubuntu1_ppc64el.deb ... Unpacking bsdmainutils (9.0.5ubuntu1) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.6.6-1_ppc64el.deb ... Unpacking man-db (2.6.6-1) ... Selecting previously unselected package libcroco3:ppc64el. Preparing to unpack .../libcroco3_0.6.8-2ubuntu1_ppc64el.deb ... Unpacking libcroco3:ppc64el (0.6.8-2ubuntu1) ... Selecting previously unselected package libsigsegv2:ppc64el. Preparing to unpack .../libsigsegv2_2.10-2_ppc64el.deb ... Unpacking libsigsegv2:ppc64el (2.10-2) ... Selecting previously unselected package libunistring0:ppc64el. Preparing to unpack .../libunistring0_0.9.3-5ubuntu3_ppc64el.deb ... Unpacking libunistring0:ppc64el (0.9.3-5ubuntu3) ... Selecting previously unselected package libpython2.7-minimal:ppc64el. Preparing to unpack .../libpython2.7-minimal_2.7.6-5_ppc64el.deb ... Unpacking libpython2.7-minimal:ppc64el (2.7.6-5) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../python2.7-minimal_2.7.6-5_ppc64el.deb ... Unpacking python2.7-minimal (2.7.6-5) ... Selecting previously unselected package python3.3. Preparing to unpack .../python3.3_3.3.4-1_ppc64el.deb ... Unpacking python3.3 (3.3.4-1) ... Selecting previously unselected package python3-minimal. Preparing to unpack .../python3-minimal_3.3.3-1_ppc64el.deb ... Unpacking python3-minimal (3.3.3-1) ... Selecting previously unselected package libpython3-stdlib:ppc64el. Preparing to unpack .../libpython3-stdlib_3.3.3-1_ppc64el.deb ... Unpacking libpython3-stdlib:ppc64el (3.3.3-1) ... Selecting previously unselected package python3. Preparing to unpack .../python3_3.3.3-1_ppc64el.deb ... Unpacking python3 (3.3.3-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../dh-python_1.20140128-1ubuntu2_all.deb ... Unpacking dh-python (1.20140128-1ubuntu2) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.14-2ubuntu1_ppc64el.deb ... Unpacking file (1:5.14-2ubuntu1) ... Selecting previously unselected package netbase. Preparing to unpack .../archives/netbase_5.2_all.deb ... Unpacking netbase (5.2) ... Selecting previously unselected package openssl. Preparing to unpack .../openssl_1.0.1f-1ubuntu1_ppc64el.deb ... Unpacking openssl (1.0.1f-1ubuntu1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../ca-certificates_20130906ubuntu1_all.deb ... Unpacking ca-certificates (20130906ubuntu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking gettext-base (0.18.3.1-1ubuntu2) ... Selecting previously unselected package m4. Preparing to unpack .../m4_1.4.17-2ubuntu1_ppc64el.deb ... Unpacking m4 (1.4.17-2ubuntu1) ... Selecting previously unselected package autoconf. Preparing to unpack .../autoconf_2.69-4_all.deb ... Unpacking autoconf (2.69-4) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../autotools-dev_20130810.1_all.deb ... Unpacking autotools-dev (20130810.1) ... Selecting previously unselected package automake. Preparing to unpack .../automake_1%3a1.14.1-2ubuntu1_all.deb ... Unpacking automake (1:1.14.1-2ubuntu1) ... Selecting previously unselected package gettext. Preparing to unpack .../gettext_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking gettext (0.18.3.1-1ubuntu2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ... Unpacking intltool-debian (0.35.0+20060710.1) ... Selecting previously unselected package po-debconf. Preparing to unpack .../po-debconf_1.0.16+nmu2ubuntu1_all.deb ... Unpacking po-debconf (1.0.16+nmu2ubuntu1) ... Selecting previously unselected package apparmor-easyprof. Preparing to unpack .../apparmor-easyprof_2.8.0-0ubuntu38_all.deb ... Unpacking apparmor-easyprof (2.8.0-0ubuntu38) ... Selecting previously unselected package dh-apparmor. Preparing to unpack .../dh-apparmor_2.8.0-0ubuntu38_all.deb ... Unpacking dh-apparmor (2.8.0-0ubuntu38) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20131127ubuntu2_all.deb ... Unpacking debhelper (9.20131127ubuntu2) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../liburi-perl_1.60-1_all.deb ... Unpacking liburi-perl (1.60-1) ... 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Setting up mime-support (3.54ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up libmpdec2:ppc64el (2.4.0-6) ... Setting up libpython3.3-stdlib:ppc64el (3.3.4-1) ... Setting up python3.3-minimal (3.3.4-1) ... Setting up libasprintf0c2:ppc64el (0.18.3.1-1ubuntu2) ... Setting up libglib2.0-0:ppc64el (2.39.4-0ubuntu1) ... No schema files found: doing nothing. Setting up libpipeline1:ppc64el (1.2.6-2) ... Setting up libxml2:ppc64el (2.9.1+dfsg1-3ubuntu3) ... Setting up groff-base (1.22.2-5) ... Setting up bsdmainutils (9.0.5ubuntu1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up man-db (2.6.6-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcroco3:ppc64el (0.6.8-2ubuntu1) ... Setting up libsigsegv2:ppc64el (2.10-2) ... 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Setting up libxml-parser-perl (2.41-1build3) ... Setting up intltool (0.50.2-2) ... Setting up python3 (3.3.3-1) ... running python rtupdate hooks for python3.3... running python post-rtupdate hooks for python3.3... Setting up dh-python (1.20140128-1ubuntu2) ... Setting up apparmor-easyprof (2.8.0-0ubuntu38) ... Setting up dh-apparmor (2.8.0-0ubuntu38) ... Setting up debhelper (9.20131127ubuntu2) ... Setting up liblwp-protocol-https-perl (6.04-2) ... Setting up dh-translations (119) ... Setting up cdbs (0.4.122ubuntu2) ... Processing triggers for libc-bin (2.18-0ubuntu7) ... Processing triggers for ca-certificates (20130906ubuntu1) ... Updating certificates in /etc/ssl/certs... 166 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d....done. Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.18-0ubuntu7 make_3.81-8.2ubuntu3 dpkg-dev_1.17.5ubuntu4 gcc-4.8_4.8.2-15ubuntu3 g++-4.8_4.8.2-15ubuntu3 binutils_2.24-2ubuntu3.1 libstdc++-4.8-dev_4.8.2-15ubuntu3 libstdc++6_4.8.2-15ubuntu3 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt gpgv: Signature made Mon Dec 19 09:49:19 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-fix95-3.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-fix95-3.debian.tar.gz dpkg-buildpackage: source package fastlink dpkg-buildpackage: source version 4.1P-fix95-3 dpkg-buildpackage: source distribution unstable dpkg-source --before-build fastlink-4.1P-fix95 dpkg-buildpackage: host architecture ppc64el dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file /usr/bin/fakeroot debian/rules clean test -x debian/rules rm -f debian/stamp-makefile-build debian/stamp-makefile-install cd 4.1P/src; make -C . CFLAGS="-g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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-arch test -x debian/rules mkdir -p "." cd 4.1P/src; make -C . CFLAGS="-g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" make[1]: Entering directory `/build/buildd/fastlink-4.1P-fix95/4.1P/src' gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c iostuff.c -o loiostuff.o iostuff.c: In function 'check_constants': iostuff.c:100:13: warning: unused variable 'l' [-Wunused-variable] int prod, l; ^ 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] locusvalues **templocus; ^ iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] static int read_till_blank_line(infile) ^ iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(inputline,DEFAULT_STRING_LENGTH,ipedfile); /* get a line */ ^ iostuff.c: In function 'check_constants': iostuff.c:162:72: warning: 'worst_ped' may be used uninitialized in this function [-Wmaybe-uninitialized] printf("\n%d alleles are needed at locus %d",ped_new_allele_count[worst_ped][locus2], locus2 + 1); ^ iostuff.c: In function 'adjust_alleles': iostuff.c:535:33: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wmaybe-uninitialized] cond_total_freq_sum[locidx] - cond_present_freq_sum; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c check.c -o locheck.o check.c: In function 'fileErrorHelp': check.c:57:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] FILE * helpTextFile ; ^ check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d %d %d %d" , ^ check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread ( numberPtr , numberSize , 1 , checkpointDatafile ) ; ^ check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets ( dateTimeStamp , DateTimeStampStringLength , checkpointDatafile ) ; ^ check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , extra ) ; ^ check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , & dummy ) ; ^ check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%s" , theLine ) ; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c comrec.c -o locomrec.o comrec.c: In function 'getrecprob': comrec.c:65:20: warning: array subscript is above array bounds [-Warray-bounds] if (!LINK->thishet[k]) ^ comrec.c:78:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap2[j - 1][k] == LINK->hap1[k]) ^ comrec.c:70:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap1[j - 1][k] == LINK->hap1[k]) ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:68:6: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:100:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:103:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency; ^ comgetvect.c:108:4: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:112:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency_cond; ^ comgetvect.c: In function 'quanval_': comgetvect.c:881:15: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] thisperson *WITH; ^ comgetvect.c: In function 'aff_': comgetvect.c:960:15: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] thisperson *WITH; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c loinputcode.c -o loinputcode.o loinputcode.c: In function 'readped': loinputcode.c:1185:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ loinputcode.c:1206:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &sex_); ^ loinputcode.c:1217:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &profield); ^ loinputcode.c:1235:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%*[^\n]"); ^ loinputcode.c:1238:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ loinputcode.c: In function 'getind': loinputcode.c:1123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", id); ^ loinputcode.c: In function 'readnumber': loinputcode.c:947:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &j); ^ loinputcode.c: In function 'readbin': loinputcode.c:920:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &j); ^ loinputcode.c: In function 'readquan': loinputcode.c:1032:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lf", &(*phen)->x[i]); ^ loinputcode.c:1041:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lf", &xval); ^ loinputcode.c:1053:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lf", &xval); ^ loinputcode.c: In function 'readaff': loinputcode.c:996:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &thisval); ^ loinputcode.c:1011:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &(*phen)->liability); ^ loinputcode.c: In function 'getlocus': loinputcode.c:1472:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%d", &LINK->whichtype, ^ loinputcode.c:1500:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1503:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->whichtype); ^ loinputcode.c:1527:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &holdlocus[V.system - 1]->freq[j]); ^ loinputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1577:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%*[^\n]", &TEMP); ^ loinputcode.c: In function 'getbin': loinputcode.c:1296:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->LINK->LINK->nfactor[*system - 1]); ^ loinputcode.c:1313:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &k); ^ loinputcode.c:1318:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c: In function 'getpen': loinputcode.c:1347:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U0.nclass); ^ loinputcode.c:1359:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[i][j][2][l]); ^ loinputcode.c:1368:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1382:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[0][i][2][l]); ^ loinputcode.c:1389:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c: In function 'getquan': loinputcode.c:1408:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U1.ntrait); ^ loinputcode.c:1420:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.pm[j][k - 1][i]); ^ loinputcode.c:1425:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1433:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.vmat[i][j]); ^ loinputcode.c:1439:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1443:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &(*locus)->UU.U1.conmat); ^ loinputcode.c: In function 'gettheta': loinputcode.c:1594:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", sex_); ^ loinputcode.c:1597:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &distratio); ^ loinputcode.c: In function 'readloci': loinputcode.c:1615:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%d%ld%*[^\n]", &mlocus, &risksys, &autosomal); ^ loinputcode.c:1633:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%lf%lf%ld%*[^\n]", &mutsys, &mutmale, &mutfemale, ^ loinputcode.c:1643:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1648:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &difference); ^ loinputcode.c:1655:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &independent); ^ loinputcode.c:1700:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%*[^\n]", &hitsys); ^ loinputcode.c:1708:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d", &itp[V.i - 1]); ^ loinputcode.c:1710:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1716:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d", &locuslist1[V.i - 1]); ^ loinputcode.c:1722:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ loinputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d", &locuslist2[V.i - 1]); ^ loinputcode.c: In function 'readped': loinputcode.c:977:6: warning: 'allsecond' may be used uninitialized in this function [-Wmaybe-uninitialized] if (allfirst <= allsecond) { ^ loinputcode.c:941:17: note: 'allsecond' was declared here int allfirst, allsecond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] censorrec *WITH; ^ oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] censorrec *WITH; ^ 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] censorrec *WITH1; ^ comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] censorrec *WITH1; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] int *TEMPGENE1, *TEMPGENE2; /*temporary pointers into genenumber table*/ ^ automodified.c:186:8: warning: variable 'TEMPGENE1' set but not used [-Wunused-but-set-variable] int *TEMPGENE1, *TEMPGENE2; /*temporary pointers into genenumber table*/ ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c comlike.c -o locomlike.o comlike.c: In function 'recompute_haps': comlike.c:363:7: warning: unused variable 'locidx' [-Wunused-variable] int locidx; ^ comlike.c:362:16: warning: variable 'tempfgeno' set but not used [-Wunused-but-set-variable] int temphap, tempfgeno, tempall; ^ comlike.c: In function 'computenumhaps': comlike.c:456:15: warning: unused variable 'locus2' [-Wunused-variable] int locus1, locus2; ^ comlike.c:456:7: warning: unused variable 'locus1' [-Wunused-variable] int locus1, locus2; ^ comlike.c: In function 'invert': comlike.c:110:32: warning: array subscript is above array bounds [-Warray-bounds] val -= v[k][i - 1] * v[k][i - 1]; ^ comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] val -= v[k][i - 1] * v[k][j]; ^ comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] for (k = i - 1; k <= j - 2; k++) ^ comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:24: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -c sexmodified.c -o sexmodified.o gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLODSCORE -c lodscore.c -o lodscore.o lodscore.c: In function 'inib': lodscore.c:1379:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(in1, "%lf", &bmat[i - 1][j]); ^ lodscore.c: In function 'main': lodscore.c:2095:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( scriptCheckpoint , "%d %d" , & scriptRun , & scriptToSleep ) ; ^ lodscore.c:2205:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets ( dateTimeStamp , DateTimeStampStringLength , checkpointDatafile ) ; ^ lodscore.c:1614:17: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ lodscore.c:1614:28: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ lodscore.c:1614:6: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ lodscore.c:1720:34: warning: 'jk' may be used uninitialized in this function [-Wmaybe-uninitialized] x[ik - 1] = bnd[ii - 1][jk - 1] + eh; ^ lodscore.c:1694:24: note: 'jk' was declared here int i, j, k, ik, ii, jk; ^ lodscore.c:1720:26: warning: 'ii' may be used uninitialized in this function [-Wmaybe-uninitialized] x[ik - 1] = bnd[ii - 1][jk - 1] + eh; ^ lodscore.c:1694:20: note: 'ii' was declared here int i, j, k, ik, ii, jk; ^ lodscore.c:1720:12: warning: 'ik' may be used uninitialized in this function [-Wmaybe-uninitialized] x[ik - 1] = bnd[ii - 1][jk - 1] + eh; ^ lodscore.c:1694:16: note: 'ik' was declared here int i, j, k, ik, ii, jk; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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/powerpc64le-linux-gnu/bits/stdio2.h:236: warning: the `gets' function is dangerous and should not be used. gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] locusvalues **templocus; ^ iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] static int read_till_blank_line(infile) ^ iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(inputline,DEFAULT_STRING_LENGTH,ipedfile); /* get a line */ ^ iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wmaybe-uninitialized] printf("\n%d alleles are needed at locus %d",ped_new_allele_count[worst_ped][l], l + 1); ^ iostuff.c: In function 'adjust_alleles': iostuff.c:535:33: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wmaybe-uninitialized] cond_total_freq_sum[locidx] - cond_present_freq_sum; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DILINK -c check.c -o ilcheck.o check.c: In function 'fileErrorHelp': check.c:57:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] FILE * helpTextFile ; ^ check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d %d %d %d" , ^ check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread ( numberPtr , numberSize , 1 , checkpointDatafile ) ; ^ check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets ( dateTimeStamp , DateTimeStampStringLength , checkpointDatafile ) ; ^ check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , extra ) ; ^ check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , & dummy ) ; ^ check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%s" , theLine ) ; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] if ((profield - 1) > maxloop) ^ 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] fscanf(loopfile, " %d\n", &num_vects); ^ cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &sex_); ^ cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &profield); ^ cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%*[^\n]"); ^ cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", id); ^ cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &(*phen)->x[i]); ^ cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &thisval); ^ cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &(*phen)->liability); ^ cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%d", &LINK->whichtype, ^ cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->whichtype); ^ cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freq[j]); ^ cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freqcond[j]); ^ cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%*[^\n]", &TEMP); ^ cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->LINK->LINK->nfactor[*system - 1]); ^ cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &k); ^ cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U0.nclass); ^ cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[i][j][2][l]); ^ cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[0][i][2][l]); ^ cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U1.ntrait); ^ cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.pm[j][k - 1][i]); ^ cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.vmat[i][j]); ^ cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &(*locus)->UU.U1.conmat); ^ cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[i]); ^ cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[mlocus - 1]); ^ cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &distratio); ^ cominputcode.c: In function 'sethap': cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c: In function 'readped': cominputcode.c:1221:6: warning: 'allsecond' may be used uninitialized in this function [-Wmaybe-uninitialized] if (allfirst <= allsecond) { ^ cominputcode.c:1186:17: note: 'allsecond' was declared here int allfirst, allsecond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DILINK -c comrec.c -o ilcomrec.o comrec.c: In function 'getrecprob': comrec.c:65:20: warning: array subscript is above array bounds [-Warray-bounds] if (!LINK->thishet[k]) ^ comrec.c:78:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap2[j - 1][k] == LINK->hap1[k]) ^ comrec.c:70:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap1[j - 1][k] == LINK->hap1[k]) ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency; ^ comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency_cond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DILINK -c ilinputcode.c -o ilinputcode.o ilinputcode.c: In function 'setiterate': ilinputcode.c:178:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &i); ^ ilinputcode.c:358:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d", &itp[i - 1]); ^ ilinputcode.c: In function 'readloci': ilinputcode.c:395:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%d%ld%*[^\n]", &mlocus, &risksys, &autosomal); ^ ilinputcode.c:422:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%lf%lf%ld%*[^\n]", &mutsys, &mutmale, &mutfemale, ^ ilinputcode.c:439:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &j); ^ ilinputcode.c:452:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ ilinputcode.c:474:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &hapfreq->genarray[i]); ^ ilinputcode.c:475:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ ilinputcode.c:489:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &difference); ^ ilinputcode.c:496:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &independent); ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] censorrec *WITH; ^ oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] censorrec *WITH; ^ 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] censorrec *WITH1; ^ comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] censorrec *WITH1; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] int temphap, tempfgeno, tempall; ^ comlike.c: In function 'invert': comlike.c:110:32: warning: array subscript is above array bounds [-Warray-bounds] val -= v[k][i - 1] * v[k][i - 1]; ^ comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] val -= v[k][i - 1] * v[k][j]; ^ comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:116:13: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] for (k = i - 1; k <= j - 2; k++) ^ comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:125:7: warning: assuming signed overflow does not occur when assuming that (X + c) >= X is always true [-Wstrict-overflow] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:27: warning: array subscript is above array bounds [-Warray-bounds] comlike.c:126:24: warning: array subscript is above array bounds [-Warray-bounds] val -= m[k][i - 1] * v[k][j - 1]; ^ comlike.c:127:39: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c:127:32: warning: array subscript is above array bounds [-Warray-bounds] m[j - 1][i - 1] = val / v[j - 1][j - 1]; ^ comlike.c: In function 'find_loopbreaker_genotypes': comlike.c:1434:16: warning: 'temploopmax' may be used uninitialized in this function [-Wmaybe-uninitialized] loopmax[i] = temploopmax; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DILINK -c commoncode.c -o ilcommoncode.o commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( scriptCheckpoint , "%d %d" , ^ commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(dateTimeStamp , ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] fscanf(in1, "%lf", &bmat[i - 1][j]); ^ ilink.c: In function 'gemini': ilink.c:2243:17: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ ilink.c:2243:28: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ ilink.c:2243:6: warning: array subscript is below array bounds [-Warray-bounds] p[n - 1] = v[n - 1] / d[n - 1]; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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/powerpc64le-linux-gnu/bits/stdio2.h:236: warning: the `gets' function is dangerous and should not be used. gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] locusvalues **templocus; ^ iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] static int read_till_blank_line(infile) ^ iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(inputline,DEFAULT_STRING_LENGTH,ipedfile); /* get a line */ ^ iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wmaybe-uninitialized] printf("\n%d alleles are needed at locus %d",ped_new_allele_count[worst_ped][l], l + 1); ^ iostuff.c: In function 'adjust_alleles': iostuff.c:535:33: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wmaybe-uninitialized] cond_total_freq_sum[locidx] - cond_present_freq_sum; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLINKMAP -c check.c -o licheck.o check.c: In function 'fileErrorHelp': check.c:57:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] FILE * helpTextFile ; ^ check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d %d %d %d" , ^ check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread ( numberPtr , numberSize , 1 , checkpointDatafile ) ; ^ check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets ( dateTimeStamp , DateTimeStampStringLength , checkpointDatafile ) ; ^ check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , extra ) ; ^ check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , & dummy ) ; ^ check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%s" , theLine ) ; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] if ((profield - 1) > maxloop) ^ 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] fscanf(loopfile, " %d\n", &num_vects); ^ cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &sex_); ^ cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &profield); ^ cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%*[^\n]"); ^ cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", id); ^ cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &(*phen)->x[i]); ^ cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &thisval); ^ cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &(*phen)->liability); ^ cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%d", &LINK->whichtype, ^ cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->whichtype); ^ cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freq[j]); ^ cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freqcond[j]); ^ cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%*[^\n]", &TEMP); ^ cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->LINK->LINK->nfactor[*system - 1]); ^ cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &k); ^ cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U0.nclass); ^ cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[i][j][2][l]); ^ cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[0][i][2][l]); ^ cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U1.ntrait); ^ cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.pm[j][k - 1][i]); ^ cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.vmat[i][j]); ^ cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &(*locus)->UU.U1.conmat); ^ cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[i]); ^ cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[mlocus - 1]); ^ cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &distratio); ^ cominputcode.c: In function 'sethap': cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c: In function 'readped': cominputcode.c:1221:6: warning: 'allsecond' may be used uninitialized in this function [-Wmaybe-uninitialized] if (allfirst <= allsecond) { ^ cominputcode.c:1186:17: note: 'allsecond' was declared here int allfirst, allsecond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLINKMAP -c comrec.c -o licomrec.o comrec.c: In function 'getrecprob': comrec.c:65:20: warning: array subscript is above array bounds [-Warray-bounds] if (!LINK->thishet[k]) ^ comrec.c:78:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap2[j - 1][k] == LINK->hap1[k]) ^ comrec.c:70:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap1[j - 1][k] == LINK->hap1[k]) ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency; ^ comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency_cond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] fscanf(datafile, "%d%d%ld%*[^\n]", &mlocus, &risksys, &autosomal); ^ liinputcode.c:53:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%lf%lf%ld%*[^\n]", &mutsys, &mutmale, &mutfemale, ^ liinputcode.c:70:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &j); ^ liinputcode.c:83:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ liinputcode.c:105:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &hapfreq->genarray[i]); ^ liinputcode.c:106:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ liinputcode.c:120:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &difference); ^ liinputcode.c:127:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &independent); ^ liinputcode.c:145:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%lf%d%*[^\n]", &whichvary, &finaltheta, &gridsize); ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] censorrec *WITH; ^ oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] censorrec *WITH; ^ 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] censorrec *WITH1; ^ comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] censorrec *WITH1; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DLINKMAP -c commoncode.c -o licommoncode.o commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( scriptCheckpoint , "%d %d" , ^ commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(dateTimeStamp , ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] fscanf(s_save,"%d",&ppid); /* get ppid from the file */ ^ linkmap.c:314:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(s_save,"%d",&omlocus); /* get mlocus from other run */ ^ linkmap.c:351:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_screen); ^ linkmap.c:354:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_screen); ^ linkmap.c:358:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_outfile); ^ linkmap.c:361:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_outfile); ^ linkmap.c:365:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_stream); ^ linkmap.c:368:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(instr,DEFAULT_STR_LENGTH,s_stream); ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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/powerpc64le-linux-gnu/bits/stdio2.h:236: warning: the `gets' function is dangerous and should not be used. gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] locusvalues **templocus; ^ iostuff.c: At top level: iostuff.c:257:12: warning: 'read_till_blank_line' defined but not used [-Wunused-function] static int read_till_blank_line(infile) ^ iostuff.c: In function 'foundped': iostuff.c:319:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(inputline,DEFAULT_STRING_LENGTH,ipedfile); /* get a line */ ^ iostuff.c: In function 'check_constants': iostuff.c:195:72: warning: 'worst_ped' may be used uninitialized in this function [-Wmaybe-uninitialized] printf("\n%d alleles are needed at locus %d",ped_new_allele_count[worst_ped][l], l + 1); ^ iostuff.c: In function 'adjust_alleles': iostuff.c:535:33: warning: 'cond_present_freq_sum' may be used uninitialized in this function [-Wmaybe-uninitialized] cond_total_freq_sum[locidx] - cond_present_freq_sum; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DMLINK -c check.c -o mlcheck.o check.c: In function 'fileErrorHelp': check.c:57:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:3: warning: 'gets' is deprecated (declared at /usr/include/powerpc64le-linux-gnu/bits/stdio2.h:233) [-Wdeprecated-declarations] gets ( theLine ) ; ^ check.c:117:11: warning: unused variable 'helpTextFile' [-Wunused-variable] FILE * helpTextFile ; ^ check.c: In function 'fileErrorHelp': check.c:57:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'recoveryErrorHelp': check.c:175:8: warning: ignoring return value of 'gets', declared with attribute warn_unused_result [-Wunused-result] gets ( theLine ) ; ^ check.c: In function 'getCkptTuple': check.c:194:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d %d %d %d" , ^ check.c: In function 'getCkptNumber': check.c:427:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread ( numberPtr , numberSize , 1 , checkpointDatafile ) ; ^ check.c: In function 'recoverCheckpoint': check.c:584:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets ( dateTimeStamp , DateTimeStampStringLength , checkpointDatafile ) ; ^ check.c:592:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , extra ) ; ^ check.c:594:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%d" , & dummy ) ; ^ check.c:595:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( checkpointDatafile , "%s" , theLine ) ; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] if ((profield - 1) > maxloop) ^ 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] fscanf(loopfile, " %d\n", &num_vects); ^ cominputcode.c:978:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c:1037:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(loopfile, "%d", &geno); ^ cominputcode.c: In function 'readped': cominputcode.c:1510:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c:1531:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &sex_); ^ cominputcode.c:1542:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &profield); ^ cominputcode.c:1575:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%*[^\n]"); ^ cominputcode.c:1578:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &newped); ^ cominputcode.c: In function 'getind': cominputcode.c:1436:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", id); ^ cominputcode.c: In function 'readnumber': cominputcode.c:1192:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readbin': cominputcode.c:1165:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &j); ^ cominputcode.c: In function 'readquan': cominputcode.c:1278:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &(*phen)->x[i]); ^ cominputcode.c:1288:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c:1300:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%lf", &xval); ^ cominputcode.c: In function 'readaff': cominputcode.c:1241:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &thisval); ^ cominputcode.c:1256:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ipedfile, "%ld", &(*phen)->liability); ^ cominputcode.c: In function 'getlocus': cominputcode.c:1825:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%d", &LINK->whichtype, ^ cominputcode.c:1858:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1861:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->whichtype); ^ cominputcode.c:1885:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freq[j]); ^ cominputcode.c:1893:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1897:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->freqcond[j]); ^ cominputcode.c:1899:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1946:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%*[^\n]", &TEMP); ^ cominputcode.c: In function 'getbin': cominputcode.c:1656:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &LINK->LINK->LINK->nfactor[*system - 1]); ^ cominputcode.c:1673:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &k); ^ cominputcode.c:1678:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getpen': cominputcode.c:1707:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U0.nclass); ^ cominputcode.c:1719:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[i][j][2][l]); ^ cominputcode.c:1728:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1736:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U0.pen[0][i][2][l]); ^ cominputcode.c:1743:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c: In function 'getquan': cominputcode.c:1761:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &(*locus)->UU.U1.ntrait); ^ cominputcode.c:1773:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.pm[j][k - 1][i]); ^ cominputcode.c:1778:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1786:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*locus)->UU.U1.vmat[i][j]); ^ cominputcode.c:1792:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1796:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &(*locus)->UU.U1.conmat); ^ cominputcode.c: In function 'gettheta': cominputcode.c:1984:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[i]); ^ cominputcode.c:1986:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &(*sex_)->theta[mlocus - 1]); ^ cominputcode.c:1987:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ cominputcode.c:1990:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%*[^\n]", &distratio); ^ cominputcode.c: In function 'sethap': cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c:44:33: warning: array subscript is above array bounds [-Warray-bounds] if ((WITH->freq[LINK->hap1[i] - 1]< minfreq) || ^ cominputcode.c:45:26: warning: array subscript is above array bounds [-Warray-bounds] (WITH->freq[LINK->hap2[i] - 1] < minfreq)) ^ cominputcode.c: In function 'readped': cominputcode.c:1221:6: warning: 'allsecond' may be used uninitialized in this function [-Wmaybe-uninitialized] if (allfirst <= allsecond) { ^ cominputcode.c:1186:17: note: 'allsecond' was declared here int allfirst, allsecond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DMLINK -c comrec.c -o mlcomrec.o comrec.c: In function 'getrecprob': comrec.c:65:20: warning: array subscript is above array bounds [-Warray-bounds] if (!LINK->thishet[k]) ^ comrec.c:78:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap2[j - 1][k] == LINK->hap1[k]) ^ comrec.c:70:48: warning: array subscript is above array bounds [-Warray-bounds] if (LINK->thishap1[j - 1][k] == LINK->hap1[k]) ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:74:6: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:117:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency; ^ comgetvect.c:120:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency; ^ comgetvect.c:125:4: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap1[i]].new_frequency_cond; ^ comgetvect.c:129:3: warning: array subscript has type 'char' [-Wchar-subscripts] [LINK->LINK->hap2[i]].new_frequency_cond; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] fscanf(datafile, "%d%d%ld%*[^\n]", &mlocus, &risksys, &autosomal); ^ mlinputcode.c:51:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%d%lf%lf%ld%*[^\n]", &mutsys, &mutmale, &mutfemale, ^ mlinputcode.c:68:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &j); ^ mlinputcode.c:81:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ mlinputcode.c:103:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &hapfreq->genarray[i]); ^ mlinputcode.c:104:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ mlinputcode.c:118:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &difference); ^ mlinputcode.c:125:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &independent); ^ mlinputcode.c:143:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%lf%lf%*[^\n]", &which, &inc, &finish); ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] censorrec *WITH; ^ oldsegup.c: In function 'oldsegup': oldsegup.c:76:14: warning: variable 'WITH' set but not used [-Wunused-but-set-variable] censorrec *WITH; ^ 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] censorrec *WITH1; ^ comnuclear.c: In function 'msegdown': comnuclear.c:1420:14: warning: variable 'WITH1' set but not used [-Wunused-but-set-variable] censorrec *WITH1; ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -DMLINK -c commoncode.c -o mlcommoncode.o commoncode.c: In function 'ckptInit': commoncode.c:289:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( scriptCheckpoint , "%d %d" , ^ commoncode.c: In function 'ckptEnsureFileContents': commoncode.c:383:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(dateTimeStamp , ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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] if (byfamily && (normalRun == checkpointStatus)) ^ mlink.c:291:8: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (normalRun == checkpointStatus) ^ mlink.c: In function 'ipedLoop': mlink.c:500:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf%lf%lf%*[^\n]", &maletheta->theta[which - 1], &inc, ^ gcc -g -O3 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -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/powerpc64le-linux-gnu/bits/stdio2.h:236: 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=] fprintf(errorfile,"\n%s",ctime(&secondsNow)); ^ 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=] fprintf(countfile,"At locus %d person %d has %d homozygous genotypes and\n %d heterozygous genotypes\n",whichsys,i,homoz,heteroz); ^ unknown.c: In function 'adjustIds': unknown.c:258:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(localpedfile," %d%d%d%d%d%d%d",&inped, &person_id, &pa_id, &ma_id, &foff_id, &npa_id, &nma_id); ^ unknown.c:385:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(localpedfile," %d%d%d%d%d%d%d",&inped, &person_id, &pa_id, &ma_id, &foff_id, &npa_id, &nma_id); ^ unknown.c:409:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(localpedfile," %d%d%d%d%d%d%d",&inped, &person_id, &pa_id, &ma_id, &foff_id, &npa_id, &nma_id); ^ 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] fgets(intext,DEFAULT_STRING_LENGTH,infile); /* get new line */ ^ unknown.c: In function 'readbin': unknown.c:2216:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &j); ^ unknown.c: In function 'respond': unknown.c:824:8: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%*[^\n]"); ^ unknown.c: In function 'readnumber': unknown.c:2235:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld%ld", &j, &k); ^ unknown.c: In function 'readaff': unknown.c:2276:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &thisval); ^ unknown.c:2291:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &WITH->liability); ^ unknown.c: In function 'readquan': unknown.c:2313:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lg", &WITH->x[i]); ^ unknown.c:2323:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lg", &xval); ^ unknown.c:2335:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%lg", &xval); ^ unknown.c: In function 'getind': unknown.c:2383:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", seq); ^ unknown.c: In function 'getrest': unknown.c:2443:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%*[^\n]"); ^ unknown.c: In function 'getquan': unknown.c:2615:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &WITH->UU.ntrait); ^ unknown.c:2622:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c: In function 'getpen': unknown.c:2636:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &WITH->UU.U0.nclass); ^ unknown.c:2648:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg", &WITH->UU.U0.pen[i][j][2][l]); ^ unknown.c:2657:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:2665:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg", &WITH->UU.U0.pen[0][i][2][l]); ^ unknown.c:2671:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c: In function 'getbin': unknown.c:2687:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &WITH->UU.U2.nfactor); ^ unknown.c:2701:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &k); ^ unknown.c:2706:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c: In function 'getlocus': unknown.c:2741:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%ld", &LINK->whichtype, &WITH->nallele); ^ unknown.c:2771:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:2772:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lf", &thislocus[V.system - 1]->onefreq); ^ unknown.c:2775:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:2779:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:2783:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:2805:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c: In function 'testhets': unknown.c:4455:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%lg%ld%ld%*[^\n]", &numl, &b_, &sexl, &prog); ^ unknown.c:4457:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%lg%lg%ld%*[^\n]", &a_, &b_, &c, &d); ^ unknown.c:4465:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4468:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &lc); ^ unknown.c:4472:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nall); ^ unknown.c:4474:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c:4476:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nqv); ^ unknown.c:4479:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4482:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4484:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4489:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nall); ^ unknown.c:4491:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4493:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nall); ^ unknown.c:4497:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4502:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4509:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nall); ^ unknown.c:4512:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4516:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4522:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%*[^\n]", &nall); ^ unknown.c:4524:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4527:8: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4533:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%ld%*[^\n]", &sexd, &int_); ^ unknown.c:4536:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4539:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4548:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%lg%*[^\n]", &a_); ^ unknown.c:4551:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld", &d); ^ unknown.c: In function 'main_old': unknown.c:4694:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%*[^\n]"); ^ unknown.c:4699:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ unknown.c: In function 'initunknown': unknown.c:4596:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%*[^\n]"); ^ unknown.c: In function 'readloci': unknown.c:2819:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%ld%ld%*[^\n]", &nsystem, &risksys, &autosomal); ^ unknown.c:2833:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%ld%lf%lf%ld%*[^\n]", &mutsys, &mu, &mu, &coupling); ^ unknown.c:2837:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(datafile, "%*[^\n]"); ^ unknown.c: In function 'readped': unknown.c:2511:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &WITH->sex); ^ unknown.c:2515:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &WITH->profield); ^ unknown.c:2556:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ 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] scanf("%*[^\n]"); ^ unknown.c:5047:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ 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] scanf("%*[^\n]"); ^ unknown.c:5176:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &newped); ^ gcc -O loopbrk.c -c -o loopbrk.o loopbrk.c: In function 'open_files': loopbrk.c:108:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%*[^\n]"); ^ loopbrk.c:126:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] scanf("%*[^\n]"); ^ 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] fgets(str1, COUNTFILE_LINE_LENGTH, countfile); ^ loopbrk.c:1136:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(str2, COUNTFILE_LINE_LENGTH -1, countfile); ^ 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] fscanf(pedfile, "%ld", &PersonInfo); ^ loopbrk.c:1185:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(rest, pedLineLength - 1, pedfile); ^ loopbrk.c:1193:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", nextPedigreeId); ^ 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] fscanf(pedfile, "%ld", &PersonInfo); ^ loopbrk.c:1503:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", &PersonInfo); ^ loopbrk.c:1507:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(rest[PersonId], pedLineLength, pedfile); ^ loopbrk.c:1530:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile, "%ld", nextPedigreeId); ^ loopbrk.c: In function 'computeLineLength': loopbrk.c:2083:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile,"%c", &c); ^ loopbrk.c: In function 'detectLoopedPedigrees': loopbrk.c:2267:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile,"%ld",&nextPedigreeId); ^ loopbrk.c: In function 'loopbreakers': loopbrk.c:2329:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile,"%ld",&nextPedigreeId); ^ loopbrk.c:2335:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(countfile, "Pedigree %d\n", &PedigreeWithLoops); ^ loopbrk.c: In function 'loopbreakers2': loopbrk.c:2391:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(pedfile,"%ld",&nextPedigreeId); ^ loopbrk.c:2397:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(countfile, "Pedigree %d\n", &PedigreeWithLoops); ^ 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 dh_installdebconf -pfastlink dh_installemacsen -pfastlink dh_installcatalogs -pfastlink dh_installpam -pfastlink dh_installlogrotate -pfastlink dh_installlogcheck -pfastlink dh_installchangelogs -pfastlink dh_installudev -pfastlink dh_lintian -pfastlink dh_bugfiles -pfastlink dh_install -pfastlink dh_link -pfastlink dh_installmime -pfastlink dh_installgsettings -pfastlink dh_strip -pfastlink dh_strip debug symbol extraction: not enabling -a because /CurrentlyBuilding exists dh_strip debug symbol extraction: all non-arch-all packages for this build platform ppc64el: fastlink dh_strip debug symbol extraction: packages to act on: fastlink dh_strip debug symbol extraction: ignored packages: dpkg-gencontrol: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: building ddeb package dpkg-deb: building package `fastlink-dbgsym' in `../fastlink-dbgsym_4.1P-fix95-3_ppc64el.ddeb'. dh_compress -pfastlink dh_fixperms -pfastlink dh_makeshlibs -pfastlink dh_installdeb -pfastlink dh_perl -pfastlink dh_shlibdeps -pfastlink dh_gencontrol -pfastlink dpkg-gencontrol: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe # only call dh_scour for packages in main if grep -q '^Component:[[:space:]]*main' /CurrentlyBuilding 2>/dev/null; then dh_scour -pfastlink ; fi dh_md5sums -pfastlink dh_builddeb -pfastlink INFO: pkgstriptranslations version 119 pkgstriptranslations: processing fastlink (in debian/fastlink); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/fastlink/DEBIAN/control, package fastlink, directory debian/fastlink pkgstripfiles: Truncating usr/share/doc/fastlink/changelog.Debian.gz to topmost ten records pkgstripfiles: PNG optimization for package fastlink took 0 s 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-fix95-3_ppc64el.deb'. dpkg-genchanges -B -mUbuntu Build Daemon >../fastlink_4.1P-fix95-3_ppc64el.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build fastlink-4.1P-fix95 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20140218-1421 Publishing debug debs. chroot-autobuild/build/buildd/fastlink_4.1P-fix95-3_ppc64el.deb: new debian package, version 2.0. size 258862 bytes: control archive=2114 bytes. 1458 bytes, 31 lines control 2163 bytes, 32 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: fastlink Version: 4.1P-fix95-3 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1240 Depends: libc6 (>= 2.17) Suggests: fastlink-doc Section: science Priority: optional Homepage: http://www.ncbi.nlm.nih.gov/CBBResearch/Schaffer/fastlink.html Description: 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-fix95-3_ppc64el.deb: drwxr-xr-x root/root 0 2014-02-18 14:21 ./ drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/ drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/bin/ -rwxr-xr-x root/root 244000 2014-02-18 14:21 ./usr/bin/mlink -rwxr-xr-x root/root 92352 2014-02-18 14:21 ./usr/bin/unknown -rwxr-xr-x root/root 252184 2014-02-18 14:21 ./usr/bin/linkmap -rwxr-xr-x root/root 260432 2014-02-18 14:21 ./usr/bin/lodscore -rwxr-xr-x root/root 281024 2014-02-18 14:21 ./usr/bin/ilink drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/ drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/man/ drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/man/man1/ -rw-r--r-- root/root 792 2014-02-18 14:21 ./usr/share/man/man1/lodscore.1.gz -rw-r--r-- root/root 621 2014-02-18 14:21 ./usr/share/man/man1/linkmap.1.gz -rw-r--r-- root/root 1272 2014-02-18 14:21 ./usr/share/man/man1/ilink.1.gz -rw-r--r-- root/root 1004 2014-02-18 14:21 ./usr/share/man/man1/unknown.1.gz -rw-r--r-- root/root 612 2014-02-18 14:21 ./usr/share/man/man1/mlink.1.gz drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/menu/ -rw-r--r-- root/root 1056 2011-12-19 04:32 ./usr/share/menu/fastlink drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/doc/ drwxr-xr-x root/root 0 2014-02-18 14:21 ./usr/share/doc/fastlink/ -rw-r--r-- root/root 3007 1999-07-03 15:08 ./usr/share/doc/fastlink/README.TreadMarks.gz -rw-r--r-- root/root 2856 1999-07-03 15:08 ./usr/share/doc/fastlink/README.memory -rw-r--r-- root/root 2895 1999-07-03 15:08 ./usr/share/doc/fastlink/README.unknown -rw-r--r-- root/root 2472 1999-07-03 15:08 ./usr/share/doc/fastlink/README.ILINK.gz -rw-r--r-- root/root 13988 2008-02-28 09:29 ./usr/share/doc/fastlink/README.updates.gz -rw-r--r-- root/root 2244 1999-07-03 15:08 ./usr/share/doc/fastlink/README.time -rw-r--r-- root/root 9847 1999-07-03 15:08 ./usr/share/doc/fastlink/README.trouble.gz -rw-r--r-- root/root 1404 2011-01-14 02:40 ./usr/share/doc/fastlink/copyright -rw-r--r-- root/root 3075 1999-07-03 15:08 ./usr/share/doc/fastlink/README.parallel.gz -rw-r--r-- root/root 1894 1999-07-03 15:08 ./usr/share/doc/fastlink/README.allele.gz -rw-r--r-- root/root 2460 1999-07-03 15:08 ./usr/share/doc/fastlink/README.constants.gz -rw-r--r-- root/root 17206 2008-11-17 01:38 ./usr/share/doc/fastlink/fastlink.html -rw-r--r-- root/root 3857 1999-09-16 20:39 ./usr/share/doc/fastlink/README.gz -rw-r--r-- root/root 2326 2014-02-18 14:21 ./usr/share/doc/fastlink/changelog.Debian.gz -rw-r--r-- root/root 1699 1999-07-03 15:08 ./usr/share/doc/fastlink/README.mapfun.gz -rw-r--r-- root/root 687 2008-11-17 01:38 ./usr/share/doc/fastlink/README.Debian -rw-r--r-- root/root 6648 1999-07-03 15:08 ./usr/share/doc/fastlink/README.checkpoint.gz -rw-r--r-- root/root 606 1999-08-19 09:48 ./usr/share/doc/fastlink/README.Linux -rw-r--r-- root/root 3140 1999-07-03 15:08 ./usr/share/doc/fastlink/README.scaling -rw-r--r-- root/root 2569 2001-12-18 13:00 ./usr/share/doc/fastlink/README.bugreport -rw-r--r-- root/root 6990 1999-07-03 15:08 ./usr/share/doc/fastlink/README.p4.gz fastlink_4.1P-fix95-3_ppc64el.changes: Format: 1.8 Date: Mon, 19 Dec 2011 10:34:20 +0100 Source: fastlink Binary: fastlink fastlink-doc Architecture: ppc64el Version: 4.1P-fix95-3 Distribution: trusty Urgency: low Maintainer: Ubuntu Build Daemon Changed-By: Andreas Tille Description: fastlink - faster version of pedigree programs of Linkage fastlink-doc - Some papers about fastlink Closes: 639998 Changes: fastlink (4.1P-fix95-3) unstable; urgency=low . * Replaced debian/*.desktop by debian/menu to make sure users of modern desktop systems using freedesktop.org standards will not be confused by a missing graphical interface Closes: #639998 * debian/control: - Standards-Version: 3.9.2 (no changes needed) - Fixed Vcs fields - Dropped article in short description * Debhelper 8 (control+compat) Checksums-Sha1: 1c3e41966925cbd34138c30a52dd50d5a43f8186 258862 fastlink_4.1P-fix95-3_ppc64el.deb Checksums-Sha256: be6ae4d3e3f35f9d708c754fb295727020ebf20af3157a2a32f30cebaab9b3b2 258862 fastlink_4.1P-fix95-3_ppc64el.deb Files: ca2e35f74a7d1dc6539c7fc7ad1c7081 258862 science optional fastlink_4.1P-fix95-3_ppc64el.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20140218-1421 Build needed 00:00:54, 16740k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-5598142'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-5598142/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-5598142'] Unmounting chroot for build PACKAGEBUILD-5598142... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-5598142'] Removing build PACKAGEBUILD-5598142