RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux komainu 3.2.0-37-generic #58-Ubuntu SMP Thu Jan 24 15:28:10 UTC 2013 x86_64 Buildd toolchain package versions: launchpad-buildd_119~0.IS.08.04 python-lpbuildd_119~0.IS.08.04 bzr_2.5.1-0ubuntu2. Syncing the system clock with the buildd NTP service... 19 Jan 05:13:20 ntpdate[9072]: adjust time server 10.211.37.1 offset -0.000162 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-5477795', '/home/buildd/filecache-default/0b388822c095e3a603c4fe082c1cce86a980f1ed'] Unpacking chroot for build PACKAGEBUILD-5477795 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-5477795'] Mounting chroot for build PACKAGEBUILD-5477795 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-5477795', 'deb http://ftpmaster.internal/ubuntu trusty main universe', 'deb http://ftpmaster.internal/ubuntu trusty-security main universe', 'deb http://ftpmaster.internal/ubuntu trusty-updates main universe', 'deb http://ftpmaster.internal/ubuntu trusty-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-5477795 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-5477795', 'amd64'] Updating debian chroot for build PACKAGEBUILD-5477795 Ign http://archive-team.internal trusty InRelease Ign http://archive-team.internal trusty Release.gpg Get:1 http://archive-team.internal trusty Release [730 B] Get:2 http://archive-team.internal trusty/main amd64 Packages Ign http://ftpmaster.internal trusty InRelease Ign http://ftpmaster.internal trusty-security InRelease Ign http://ftpmaster.internal trusty-updates InRelease Ign http://ftpmaster.internal trusty-proposed InRelease Get:3 http://ftpmaster.internal trusty Release.gpg [933 B] Ign http://archive-team.internal trusty/main Translation-en Get:4 http://ftpmaster.internal trusty-security Release.gpg [933 B] Get:5 http://ftpmaster.internal trusty-updates Release.gpg [933 B] Get:6 http://ftpmaster.internal trusty-proposed Release.gpg [933 B] Get:7 http://ftpmaster.internal trusty Release [58.5 kB] Get:8 http://ftpmaster.internal trusty-security Release [58.5 kB] Get:9 http://ftpmaster.internal trusty-updates Release [58.5 kB] Get:10 http://ftpmaster.internal trusty-proposed Release [58.5 kB] Get:11 http://ftpmaster.internal trusty/main amd64 Packages [1297 kB] Get:12 http://ftpmaster.internal trusty/universe amd64 Packages [5860 kB] Get:13 http://ftpmaster.internal trusty/main Translation-en [743 kB] Get:14 http://ftpmaster.internal trusty/universe Translation-en [4037 kB] Get:15 http://ftpmaster.internal trusty-security/main amd64 Packages [14 B] Get:16 http://ftpmaster.internal trusty-security/universe amd64 Packages [14 B] Get:17 http://ftpmaster.internal trusty-security/main Translation-en [14 B] Get:18 http://ftpmaster.internal trusty-security/universe Translation-en [14 B] Get:19 http://ftpmaster.internal trusty-updates/main amd64 Packages [14 B] Get:20 http://ftpmaster.internal trusty-updates/universe amd64 Packages [14 B] Get:21 http://ftpmaster.internal trusty-updates/main Translation-en [14 B] Get:22 http://ftpmaster.internal trusty-updates/universe Translation-en [14 B] Get:23 http://ftpmaster.internal trusty-proposed/main amd64 Packages [38.7 kB] Get:24 http://ftpmaster.internal trusty-proposed/universe amd64 Packages [115 kB] Get:25 http://ftpmaster.internal trusty-proposed/main Translation-en [18.5 kB] Get:26 http://ftpmaster.internal trusty-proposed/universe Translation-en [75.4 kB] Fetched 12.4 MB in 4s (2815 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libprocps1 Use 'apt-get autoremove' to remove it. The following NEW packages will be installed: libdebconfclient0 libprocps3 The following packages will be upgraded: apt apt-transport-https base-files base-passwd bsdutils cpp cpp-4.8 dpkg dpkg-dev e2fslibs e2fsprogs findutils g++ g++-4.8 gcc gcc-4.8 gcc-4.8-base grep gzip ifupdown libapt-pkg4.12 libasan0 libatomic1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcomerr2 libdbus-1-3 libdpkg-perl libffi6 libgcc-4.8-dev libgcc1 libgmp10 libgomp1 libitm1 libmount1 libncurses5 libncursesw5 libpam-modules libpam-modules-bin libpam-runtime libpam0g libquadmath0 libsqlite3-0 libss2 libstdc++-4.8-dev libstdc++6 libtinfo5 libtsan0 libudev1 libuuid1 linux-libc-dev login mount multiarch-support ncurses-base ncurses-bin passwd perl perl-base perl-modules pkgbinarymangler procps udev util-linux 67 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 45.3 MB of archives. After this operation, 525 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main base-files amd64 7.2ubuntu1 [45.2 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main dpkg amd64 1.17.5ubuntu2 [1963 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main libc-bin amd64 2.18-0ubuntu6 [1160 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty/main libc6-dev amd64 2.18-0ubuntu6 [1914 kB] Get:5 http://ftpmaster.internal/ubuntu/ trusty/main libc-dev-bin amd64 2.18-0ubuntu6 [68.8 kB] Get:6 http://ftpmaster.internal/ubuntu/ trusty/main linux-libc-dev amd64 3.13.0-4.19 [737 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main libitm1 amd64 4.8.2-14ubuntu2 [28.6 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main libgomp1 amd64 4.8.2-14ubuntu2 [23.1 kB] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main libasan0 amd64 4.8.2-14ubuntu2 [63.0 kB] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.8-base amd64 4.8.2-14ubuntu2 [15.0 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libgcc1 amd64 1:4.8.2-14ubuntu2 [37.5 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main libatomic1 amd64 4.8.2-14ubuntu2 [8618 B] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main libtsan0 amd64 4.8.2-14ubuntu2 [94.8 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main libquadmath0 amd64 4.8.2-14ubuntu2 [126 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main cpp-4.8 amd64 4.8.2-14ubuntu2 [4448 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libstdc++-4.8-dev amd64 4.8.2-14ubuntu2 [1050 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main g++-4.8 amd64 4.8.2-14ubuntu2 [6954 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.8 amd64 4.8.2-14ubuntu2 [4957 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty/main libgcc-4.8-dev amd64 4.8.2-14ubuntu2 [1688 kB] Get:20 http://ftpmaster.internal/ubuntu/ trusty/main libstdc++6 amd64 4.8.2-14ubuntu2 [251 kB] Get:21 http://ftpmaster.internal/ubuntu/ trusty/main libgmp10 amd64 2:5.1.3+dfsg-1ubuntu1 [218 kB] Get:22 http://ftpmaster.internal/ubuntu/ trusty/main libc6 amd64 2.18-0ubuntu6 [4754 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty/main e2fslibs amd64 1.42.9-2ubuntu1 [181 kB] Get:24 http://ftpmaster.internal/ubuntu/ trusty/main e2fsprogs amd64 1.42.9-2ubuntu1 [661 kB] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main findutils amd64 4.4.2-7 [272 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main grep amd64 2.16-1 [163 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main gzip amd64 1.6-3ubuntu1 [86.8 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty/main login amd64 1:4.1.5.1-1ubuntu8 [303 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main mount amd64 2.20.1-5.1ubuntu13 [114 kB] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main ncurses-bin amd64 5.9+20131221-1ubuntu1 [137 kB] Get:31 http://ftpmaster.internal/ubuntu/ trusty/main perl amd64 5.18.2-2 [2630 kB] Get:32 http://ftpmaster.internal/ubuntu/ trusty/main perl-base amd64 5.18.2-2 [1147 kB] Get:33 http://ftpmaster.internal/ubuntu/ trusty/main perl-modules all 5.18.2-2 [2696 kB] Get:34 http://ftpmaster.internal/ubuntu/ trusty/main util-linux amd64 2.20.1-5.1ubuntu13 [456 kB] Get:35 http://ftpmaster.internal/ubuntu/ trusty/main libapt-pkg4.12 amd64 0.9.14.1ubuntu2 [627 kB] Get:36 http://ftpmaster.internal/ubuntu/ trusty/main apt amd64 0.9.14.1ubuntu2 [954 kB] Get:37 http://ftpmaster.internal/ubuntu/ trusty/main libdebconfclient0 amd64 0.187ubuntu1 [6662 B] Get:38 http://ftpmaster.internal/ubuntu/ trusty/main base-passwd amd64 3.5.32 [46.5 kB] Get:39 http://ftpmaster.internal/ubuntu/ trusty/main bsdutils amd64 1:2.20.1-5.1ubuntu13 [33.6 kB] Get:40 http://ftpmaster.internal/ubuntu/ trusty/main ncurses-base all 5.9+20131221-1ubuntu1 [16.5 kB] Get:41 http://ftpmaster.internal/ubuntu/ trusty/main libpam0g amd64 1.1.3-11ubuntu1 [55.6 kB] Get:42 http://ftpmaster.internal/ubuntu/ trusty/main libpam-modules-bin amd64 1.1.3-11ubuntu1 [30.8 kB] Get:43 http://ftpmaster.internal/ubuntu/ trusty/main libpam-modules amd64 1.1.3-11ubuntu1 [229 kB] Get:44 http://ftpmaster.internal/ubuntu/ trusty/main passwd amd64 1:4.1.5.1-1ubuntu8 [757 kB] Get:45 http://ftpmaster.internal/ubuntu/ trusty/main libuuid1 amd64 2.20.1-5.1ubuntu13 [10.7 kB] Get:46 http://ftpmaster.internal/ubuntu/ trusty/main libblkid1 amd64 2.20.1-5.1ubuntu13 [62.7 kB] Get:47 http://ftpmaster.internal/ubuntu/ trusty/main libcomerr2 amd64 1.42.9-2ubuntu1 [62.4 kB] Get:48 http://ftpmaster.internal/ubuntu/ trusty/main libmount1 amd64 2.20.1-5.1ubuntu13 [60.1 kB] Get:49 http://ftpmaster.internal/ubuntu/ trusty/main libncursesw5 amd64 5.9+20131221-1ubuntu1 [118 kB] Get:50 http://ftpmaster.internal/ubuntu/ trusty/main libtinfo5 amd64 5.9+20131221-1ubuntu1 [75.8 kB] Get:51 http://ftpmaster.internal/ubuntu/ trusty/main libncurses5 amd64 5.9+20131221-1ubuntu1 [93.3 kB] Get:52 http://ftpmaster.internal/ubuntu/ trusty/main libss2 amd64 1.42.9-2ubuntu1 [66.8 kB] Get:53 http://ftpmaster.internal/ubuntu/ trusty/main libffi6 amd64 3.0.13-11 [17.2 kB] Get:54 http://ftpmaster.internal/ubuntu/ trusty/main libsqlite3-0 amd64 3.8.2-1ubuntu2 [342 kB] Get:55 http://ftpmaster.internal/ubuntu/ trusty/main libdbus-1-3 amd64 1.6.18-0ubuntu3 [132 kB] Get:56 http://ftpmaster.internal/ubuntu/ trusty/main libprocps3 amd64 1:3.3.9-1ubuntu2 [31.6 kB] Get:57 http://ftpmaster.internal/ubuntu/ trusty/main procps amd64 1:3.3.9-1ubuntu2 [209 kB] Get:58 http://ftpmaster.internal/ubuntu/ trusty/main udev amd64 204-5ubuntu8 [733 kB] Get:59 http://ftpmaster.internal/ubuntu/ trusty/main libudev1 amd64 204-5ubuntu8 [35.6 kB] Get:60 http://ftpmaster.internal/ubuntu/ trusty/main libpam-runtime all 1.1.3-11ubuntu1 [38.6 kB] Get:61 http://ftpmaster.internal/ubuntu/ trusty/main multiarch-support amd64 2.18-0ubuntu6 [4486 B] Get:62 http://ftpmaster.internal/ubuntu/ trusty/main ifupdown amd64 0.7.47.2ubuntu1 [52.1 kB] Get:63 http://ftpmaster.internal/ubuntu/ trusty/main apt-transport-https amd64 0.9.14.1ubuntu2 [24.7 kB] Get:64 http://ftpmaster.internal/ubuntu/ trusty/main cpp amd64 4:4.8.2-1ubuntu3 [27.7 kB] Get:65 http://ftpmaster.internal/ubuntu/ trusty/main dpkg-dev all 1.17.5ubuntu2 [726 kB] Get:66 http://ftpmaster.internal/ubuntu/ trusty/main libdpkg-perl all 1.17.5ubuntu2 [179 kB] Get:67 http://ftpmaster.internal/ubuntu/ trusty/main gcc amd64 4:4.8.2-1ubuntu3 [5008 B] Get:68 http://ftpmaster.internal/ubuntu/ trusty/main g++ amd64 4:4.8.2-1ubuntu3 [1506 B] Get:69 http://ftpmaster.internal/ubuntu/ trusty/main pkgbinarymangler all 119 [28.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 45.3 MB in 2s (19.0 MB/s) (Reading database ... 11962 files and directories currently installed.) Preparing to replace base-files 6.12ubuntu5 (using .../base-files_7.2ubuntu1_amd64.deb) ... Unpacking replacement base-files ... Setting up base-files (7.2ubuntu1) ... Installing new version of config file /etc/debian_version ... (Reading database ... 11962 files and directories currently installed.) Preparing to replace dpkg 1.17.1ubuntu1 (using .../dpkg_1.17.5ubuntu2_amd64.deb) ... Unpacking replacement dpkg ... Setting up dpkg (1.17.5ubuntu2) ... (Reading database ... 11964 files and directories currently installed.) Preparing to unpack .../libc-bin_2.18-0ubuntu6_amd64.deb ... Unpacking libc-bin (2.18-0ubuntu6) over (2.18-0ubuntu2) ... Preparing to unpack .../libc6_2.18-0ubuntu6_amd64.deb ... Unpacking libc6:amd64 (2.18-0ubuntu6) over (2.18-0ubuntu2) ... Preparing to unpack .../libgcc1_1%3a4.8.2-14ubuntu2_amd64.deb ... Unpacking libgcc1:amd64 (1:4.8.2-14ubuntu2) over (1:4.8.2-10ubuntu2) ... Preparing to unpack .../gcc-4.8-base_4.8.2-14ubuntu2_amd64.deb ... Unpacking gcc-4.8-base:amd64 (4.8.2-14ubuntu2) over (4.8.2-10ubuntu2) ... Setting up gcc-4.8-base:amd64 (4.8.2-14ubuntu2) ... Setting up libgcc1:amd64 (1:4.8.2-14ubuntu2) ... Setting up libc6:amd64 (2.18-0ubuntu6) ... Setting up libc-bin (2.18-0ubuntu6) ... (Reading database ... 11964 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.18-0ubuntu6_amd64.deb ... Unpacking libc6-dev:amd64 (2.18-0ubuntu6) over (2.18-0ubuntu2) ... Preparing to unpack .../libc-dev-bin_2.18-0ubuntu6_amd64.deb ... Unpacking libc-dev-bin (2.18-0ubuntu6) over (2.18-0ubuntu2) ... Preparing to unpack .../linux-libc-dev_3.13.0-4.19_amd64.deb ... Unpacking linux-libc-dev:amd64 (3.13.0-4.19) over (3.12.0-7.15) ... Preparing to unpack .../libitm1_4.8.2-14ubuntu2_amd64.deb ... Unpacking libitm1:amd64 (4.8.2-14ubuntu2) over (4.8.2-10ubuntu2) ... Preparing to unpack .../libgomp1_4.8.2-14ubuntu2_amd64.deb ... Unpacking libgomp1:amd64 (4.8.2-14ubuntu2) over (4.8.2-10ubuntu2) ... 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(Reading database ... 11969 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.42.9-2ubuntu1_amd64.deb ... Unpacking e2fsprogs (1.42.9-2ubuntu1) over (1.42.8-1ubuntu3) ... Setting up e2fsprogs (1.42.9-2ubuntu1) ... (Reading database ... 11972 files and directories currently installed.) Preparing to unpack .../findutils_4.4.2-7_amd64.deb ... Unpacking findutils (4.4.2-7) over (4.4.2-6ubuntu2) ... Setting up findutils (4.4.2-7) ... (Reading database ... 11972 files and directories currently installed.) Preparing to unpack .../archives/grep_2.16-1_amd64.deb ... Unpacking grep (2.16-1) over (2.15-2) ... Setting up grep (2.16-1) ... (Reading database ... 11972 files and directories currently installed.) Preparing to unpack .../gzip_1.6-3ubuntu1_amd64.deb ... Unpacking gzip (1.6-3ubuntu1) over (1.6-2ubuntu1) ... Setting up gzip (1.6-3ubuntu1) ... (Reading database ... 11972 files and directories currently installed.) 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Selecting previously unselected package libdebconfclient0:amd64. (Reading database ... 11970 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.187ubuntu1_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.187ubuntu1) ... Setting up libdebconfclient0:amd64 (0.187ubuntu1) ... Processing triggers for libc-bin (2.18-0ubuntu6) ... (Reading database ... 11975 files and directories currently installed.) Preparing to unpack .../base-passwd_3.5.32_amd64.deb ... Unpacking base-passwd (3.5.32) over (3.5.28) ... Setting up base-passwd (3.5.32) ... Changing shell of daemon from /bin/sh to /usr/sbin/nologin Changing shell of bin from /bin/sh to /usr/sbin/nologin Changing shell of sys from /bin/sh to /usr/sbin/nologin Changing shell of games from /bin/sh to /usr/sbin/nologin Changing shell of man from /bin/sh to /usr/sbin/nologin Changing shell of lp from /bin/sh to /usr/sbin/nologin Changing shell of mail from /bin/sh to /usr/sbin/nologin Changing shell of news from /bin/sh to /usr/sbin/nologin Changing shell of uucp from /bin/sh to /usr/sbin/nologin Changing shell of proxy from /bin/sh to /usr/sbin/nologin Changing shell of www-data from /bin/sh to /usr/sbin/nologin Changing shell of backup from /bin/sh to /usr/sbin/nologin Changing shell of list from /bin/sh to /usr/sbin/nologin Changing shell of irc from /bin/sh to /usr/sbin/nologin Changing shell of gnats from /bin/sh to /usr/sbin/nologin Changing shell of nobody from /bin/sh to /usr/sbin/nologin 16 changes have been made, rewriting files Writing passwd-file to /etc/passwd Writing shadow-file to /etc/shadow Writing group-file to /etc/group (Reading database ... 11976 files and directories currently installed.) 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Setting up udev (204-5ubuntu8) ... invoke-rc.d: policy-rc.d denied execution of restart. Removing 'diversion of /bin/udevadm to /bin/udevadm.upgrade by fake-udev' update-initramfs: deferring update (trigger activated) Setting up ifupdown (0.7.47.2ubuntu1) ... Setting up apt-transport-https (0.9.14.1ubuntu2) ... Setting up cpp (4:4.8.2-1ubuntu3) ... Setting up gcc (4:4.8.2-1ubuntu3) ... Setting up g++ (4:4.8.2-1ubuntu3) ... Setting up pkgbinarymangler (119) ... Setting up perl-modules (5.18.2-2) ... Setting up perl (5.18.2-2) ... Setting up libdpkg-perl (1.17.5ubuntu2) ... Setting up dpkg-dev (1.17.5ubuntu2) ... Processing triggers for libc-bin (2.18-0ubuntu6) ... Processing triggers for initramfs-tools (0.103ubuntu3) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-5477795', 'amd64', 'trusty-proposed', '--nolog', '--batch', '--archive=ubuntu', '--dist=trusty-proposed', '--purpose=PRIMARY', '--architecture=amd64', '--comp=universe', 'mafft_7.130-1.dsc'] Initiating build PACKAGEBUILD-5477795 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.2.0-37-generic #58-Ubuntu SMP Thu Jan 24 15:28:10 UTC 2013 x86_64 Automatic build of mafft_7.130-1 on komainu by sbuild/amd64 1.170.5 Build started at 20140119-0515 ****************************************************************************** mafft_7.130-1.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9) Checking for already installed source dependencies... debhelper: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libprocps1 Use 'apt-get autoremove' to remove it. The following extra packages will be installed: apparmor-easyprof bsdmainutils dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.3 python3.3-minimal Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl python3-doc python3-tk python3.3-doc binfmt-support Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: apparmor-easyprof bsdmainutils debhelper dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.3 python3.3-minimal 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 10.9 MB of archives. After this operation, 43.3 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main libexpat1 amd64 2.1.0-4ubuntu1 [71.1 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libmagic1 amd64 1:5.14-2ubuntu1 [183 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main libssl1.0.0 amd64 1.0.1f-1ubuntu1 [823 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-minimal amd64 3.3.3-6 [397 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 amd64 2.4.0-6 [79.4 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-stdlib amd64 3.3.3-6 [1985 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main python3.3-minimal amd64 3.3.3-6 [1368 kB] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main libasprintf0c2 amd64 0.18.3.1-1ubuntu2 [6654 B] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main libglib2.0-0 amd64 2.39.3-0ubuntu4 [1044 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libpipeline1 amd64 1.2.6-1 [23.7 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main libxml2 amd64 2.9.1+dfsg1-3ubuntu3 [571 kB] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main groff-base amd64 1.22.2-4 [1054 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main bsdmainutils amd64 9.0.5ubuntu1 [203 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main man-db amd64 2.6.5-3 [709 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libcroco3 amd64 0.6.8-2ubuntu1 [82.4 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main libunistring0 amd64 0.9.3-5ubuntu3 [271 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main python3.3 amd64 3.3.3-6 [131 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty-proposed/main python3-minimal amd64 3.3.3-1 [23.5 kB] Get:20 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libpython3-stdlib amd64 3.3.3-1 [7092 B] Get:21 http://ftpmaster.internal/ubuntu/ trusty-proposed/main python3 amd64 3.3.3-1 [8660 B] Get:22 http://ftpmaster.internal/ubuntu/ trusty/main dh-python all 1.20131021-1ubuntu8 [50.2 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty/main file amd64 1:5.14-2ubuntu1 [18.8 kB] Get:24 http://ftpmaster.internal/ubuntu/ trusty/main gettext-base amd64 0.18.3.1-1ubuntu2 [48.8 kB] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main gettext amd64 0.18.3.1-1ubuntu2 [831 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty/main apparmor-easyprof all 2.8.0-0ubuntu38 [20.1 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main dh-apparmor all 2.8.0-0ubuntu38 [7286 B] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main debhelper all 9.20131127ubuntu1 [604 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.9 MB in 0s (18.7 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... 11982 files and directories currently installed.) Preparing to unpack .../libexpat1_2.1.0-4ubuntu1_amd64.deb ... Unpacking libexpat1:amd64 (2.1.0-4ubuntu1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../libmagic1_1%3a5.14-2ubuntu1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.14-2ubuntu1) ... Selecting previously unselected package libssl1.0.0:amd64. Preparing to unpack .../libssl1.0.0_1.0.1f-1ubuntu1_amd64.deb ... Unpacking libssl1.0.0:amd64 (1.0.1f-1ubuntu1) ... Selecting previously unselected package libpython3.3-minimal:amd64. Preparing to unpack .../libpython3.3-minimal_3.3.3-6_amd64.deb ... Unpacking libpython3.3-minimal:amd64 (3.3.3-6) ... 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:amd64. Preparing to unpack .../libmpdec2_2.4.0-6_amd64.deb ... 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Unpacking debhelper (9.20131127ubuntu1) ... Setting up libexpat1:amd64 (2.1.0-4ubuntu1) ... Setting up libmagic1:amd64 (1:5.14-2ubuntu1) ... Setting up libssl1.0.0:amd64 (1.0.1f-1ubuntu1) ... Setting up libpython3.3-minimal:amd64 (3.3.3-6) ... Setting up mime-support (3.54ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up libmpdec2:amd64 (2.4.0-6) ... Setting up libpython3.3-stdlib:amd64 (3.3.3-6) ... Setting up python3.3-minimal (3.3.3-6) ... Setting up libasprintf0c2:amd64 (0.18.3.1-1ubuntu2) ... Setting up libglib2.0-0:amd64 (2.39.3-0ubuntu4) ... No schema files found: doing nothing. Setting up libpipeline1:amd64 (1.2.6-1) ... Setting up libxml2:amd64 (2.9.1+dfsg1-3ubuntu3) ... Setting up groff-base (1.22.2-4) ... 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 (2.6.5-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libcroco3:amd64 (0.6.8-2ubuntu1) ... Setting up libunistring0:amd64 (0.9.3-5ubuntu3) ... Setting up python3.3 (3.3.3-6) ... Setting up python3-minimal (3.3.3-1) ... Setting up libpython3-stdlib:amd64 (3.3.3-1) ... Setting up file (1:5.14-2ubuntu1) ... Setting up gettext-base (0.18.3.1-1ubuntu2) ... Setting up gettext (0.18.3.1-1ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-python (1.20131021-1ubuntu8) ... Setting up python3 (3.3.3-1) ... running python rtupdate hooks for python3.3... running python post-rtupdate hooks for python3.3... Setting up apparmor-easyprof (2.8.0-0ubuntu38) ... Setting up dh-apparmor (2.8.0-0ubuntu38) ... Setting up debhelper (9.20131127ubuntu1) ... Processing triggers for libc-bin (2.18-0ubuntu6) ... Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.18-0ubuntu6 make_3.81-8.2ubuntu3 dpkg-dev_1.17.5ubuntu2 gcc-4.8_4.8.2-14ubuntu2 g++-4.8_4.8.2-14ubuntu2 binutils_2.24-2ubuntu2 libstdc++-4.8-dev_4.8.2-14ubuntu2 libstdc++6_4.8.2-14ubuntu2 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt gpgv: Signature made Sat Jan 18 23:31:02 2014 UTC using RSA key ID 2295D502 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./mafft_7.130-1.dsc dpkg-source: info: extracting mafft in mafft-7.130 dpkg-source: info: unpacking mafft_7.130.orig.tar.gz dpkg-source: info: unpacking mafft_7.130-1.debian.tar.xz dpkg-buildpackage: source package mafft dpkg-buildpackage: source version 7.130-1 dpkg-buildpackage: source distribution unstable dpkg-source --before-build mafft-7.130 dpkg-buildpackage: host architecture amd64 dpkg-source: warning: unknown information field 'Testsuite' in input data in general section of control info file /usr/bin/fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean debian/rules override_dh_clean make[1]: Entering directory `/build/buildd/mafft-7.130' [ ! -f core/Makefile ] || /usr/bin/make -C core clean make[2]: Entering directory `/build/buildd/mafft-7.130/core' rm -f *.o *.a *.exe *~ mafftash_premafft.pl dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version mafft mafft-homologs.rb make[2]: Leaving directory `/build/buildd/mafft-7.130/core' rm -rf binaries/* scripts/* dh_clean make[1]: Leaving directory `/build/buildd/mafft-7.130' debian/rules build-arch dh build-arch dh_testdir -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory `/build/buildd/mafft-7.130' /usr/bin/make -C core \ PREFIX=/usr/lib/mafft \ ENABLE_MULTITHREAD=-Denablemultithread \ LIBDIR=/usr/lib/mafft/lib/mafft \ CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2" \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" make[2]: Entering directory `/build/buildd/mafft-7.130/core' cp mafftash_premafft.tmpl mafftash_premafft.pl gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c mtxutl.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c io.c io.c: In function 'PreRead': io.c:1037:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); *locnjob = atoi( b ); ^ io.c:1042:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:1046:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); nleni = atoi( b ); ^ io.c: In function 'FRead': io.c:1082:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:1172:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); nlen[i] = atoi( b ); /* seq i no nagasa */ ^ io.c: In function 'readhat2_floathalf_part_pointer': io.c:2442:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2443:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ^ io.c:2448:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2_floathalf_pointer': io.c:2478:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2479:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ^ io.c:2484:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2_floathalf': io.c:2512:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2513:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ErrorExit( "hat2 is wrong." ); ^ io.c:2514:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2_float': io.c:2542:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2543:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ErrorExit( "hat2 is wrong." ); ^ io.c:2544:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2_int': io.c:2572:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2573:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ErrorExit( "hat2 is wrong." ); ^ io.c:2574:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2_pointer': io.c:2603:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2604:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ErrorExit( "hat2 is wrong." ); ^ io.c:2605:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'readhat2': io.c:2633:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c:2634:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); b[5] = 0; nseq0 = atoi( b ); if( nseq != nseq0 ) ErrorExit( "hat2 is wrong." ); ^ io.c:2635:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B, fp ); ^ io.c: In function 'ReadFasta_sub': io.c:2835:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:2850:18: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadSsearch': io.c:2869:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadBlastm7_avscore': io.c:2997:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3004:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3005:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadBlastm7_scoreonly': io.c:3120:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3127:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3128:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadBlastm7': io.c:3238:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3245:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3246:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34noalign': io.c:3270:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34m10_nuc': io.c:3307:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3333:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34m10': io.c:3446:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3470:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34m10_scoreonly_nucbk': io.c:3573:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34m10_scoreonly_nuc': io.c:3623:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34m10_scoreonly': io.c:3684:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta34': io.c:3740:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c:3766:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); // initn: ^ io.c:3769:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); // Smith-Waterman score ^ io.c:3781:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta3': io.c:3803:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadFasta': io.c:3828:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadOpt': io.c:3865:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'ReadOpt2': io.c:3886:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'readOtherOptions': io.c:3982:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( b, B-1, fp ); ^ io.c: In function 'loadaamtx': io.c:4808:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( inorder, 999, mf ); ^ io.c:4840:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, mf ); ^ io.c:4862:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, mf ); ^ io.c: In function 'readsubalignmentstable': io.c:5008:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, linelen-1, fp ); ^ io.c:5029:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, linelen-1, fp ); ^ io.c: In function 'readmccaskill': io.c:5083:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c:5093:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c: In function 'readpairfoldalign': io.c:5152:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c:5165:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c:5172:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c:5186:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ io.c:5192:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c mltaln9.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c tddis.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c constants.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c nj.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c partQalignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c partSalignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Lalignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c rna.c rna.c: In function 'rnaalifoldcall': rna.c:223:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( cmd ); ^ rna.c:243:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ rna.c:283:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( cmd ); ^ gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Salignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Qalignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Falign.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Falign_localhom.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Galign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c MSalignmm.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c fftFunctions.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c fft.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c tditeration.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c dvtditr.c dvtditr.c: In function 'main': dvtditr.c:794:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( "cp infile.tree GuideTree" ); // tekitou ^ gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c defs.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c SAalignmm.c -o SAalignmm.o gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c treeOperation.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c addfunctions.c gcc -o dvtditr mtxutl.o io.o mltaln9.o tddis.o constants.o nj.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o MSalignmm.o fftFunctions.o fft.o tditeration.o dvtditr.o defs.o SAalignmm.o treeOperation.o addfunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c dndfast7.c dndfast7.c: In function 'main': dndfast7.c:328:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ gcc -o dndfast7 dndfast7.o io.o constants.o mtxutl.o mltaln9.o tddis.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c dndblast.c dndblast.c: In function 'main': dndblast.c:203:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ dndblast.c:384:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ gcc -o dndblast dndblast.o io.o constants.o mtxutl.o mltaln9.o tddis.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c sextet5.c gcc -o sextet5 io.o constants.o mtxutl.o mltaln9.o tddis.o sextet5.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c mafft-distance.c gcc -o mafft-distance io.o constants.o mtxutl.o mltaln9.o tddis.o mafft-distance.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c MSalign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c suboptalign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c genGalign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c genalign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c Lalign11.c gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c pairlocalalign.c pairlocalalign.c: In function 'calllast_once': pairlocalalign.c:1054:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( command ); ^ pairlocalalign.c:1090:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( command ); ^ pairlocalalign.c: In function 'readlastresx': pairlocalalign.c:606:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 9999, fp ); ^ pairlocalalign.c: In function 'calllast_fast': pairlocalalign.c:979:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( command ); ^ pairlocalalign.c: In function 'lastcallthread': pairlocalalign.c:870:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( command ); ^ pairlocalalign.c: In function 'readlastresx_singleq': pairlocalalign.c:372:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 9999, fp ); ^ pairlocalalign.c: In function 'readhat4': pairlocalalign.c:1530:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( oneline, 999, fp ); ^ pairlocalalign.c:1542:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( oneline, 999, fp ); ^ pairlocalalign.c: In function 'recalllara': pairlocalalign.c:1243:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ pairlocalalign.c: In function 'callmxscarna_giving_bpp': pairlocalalign.c:1406:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairlocalalign.c:1408:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairlocalalign.c:1428:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1449:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1463:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1483:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ pairlocalalign.c:1485:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ pairlocalalign.c: In function 'calldafs_giving_bpp': pairlocalalign.c:1289:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairlocalalign.c:1291:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairlocalalign.c:1311:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1332:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1342:8: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ pairlocalalign.c:1362:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ pairlocalalign.c:1364:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ pairlocalalign.c:1366:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 999, fp ); ^ gcc -o pairlocalalign mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o MSalignmm.o Galign11.o MSalign11.o suboptalign11.o genGalign11.o genalign11.o Lalign11.o SAalignmm.o pairlocalalign.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c pair2hat3s.c gcc -o pair2hat3s mtxutl.o io.o mltaln9.o tddis.o constants.o pair2hat3s.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c multi2hat3s.c gcc -o multi2hat3s mtxutl.o io.o mltaln9.o tddis.o constants.o multi2hat3s.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c pairash.c pairash.c: In function 'prepareash': pairash.c:639:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:681:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c: In function 'callrash': pairash.c:485:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairash.c: In function 'readrash': pairash.c:277:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:284:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:289:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:294:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c: In function 'preparetmalign': pairash.c:530:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:576:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:587:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( command ); ^ pairash.c: In function 'checkcbeta': pairash.c:321:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( linec, 999, fp ); ^ pairash.c: In function 'calltmalign': pairash.c:347:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ pairash.c:356:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( com, 100, fp ); ^ pairash.c: In function 'readtmalign': pairash.c:228:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 999, fp ); ^ pairash.c:232:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, nlenmax*2, fp ); ^ pairash.c:235:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, nlenmax*2, fp ); ^ pairash.c:238:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, nlenmax*2, fp ); ^ gcc -o pairash mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o MSalignmm.o Galign11.o MSalign11.o suboptalign11.o genGalign11.o genalign11.o Lalign11.o SAalignmm.o pairash.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c addsingle.c gcc -o addsingle mtxutl.o io.o mltaln9.o tddis.o constants.o MSalignmm.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o addsingle.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c splittbfast.c splittbfast.c: In function 'main': splittbfast.c:3217:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ gcc -o splittbfast mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o Lalign11.o splittbfast.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c disttbfast.c disttbfast.c: In function 'main': disttbfast.c:1973:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( "cp infile.tree GuideTree" ); // tekitou ^ gcc -o disttbfast mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o disttbfast.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c tbfast.c tbfast.c: In function 'main': tbfast.c:1906:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( "cp infile.tree GuideTree" ); // tekitou ^ gcc -o tbfast mtxutl.o io.o mltaln9.o tddis.o constants.o MSalignmm.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o tbfast.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c mafft-profile.c gcc -o mafft-profile io.o mtxutl.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o MSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o SAalignmm.o Galign11.o Falign.o Falign_localhom.o fftFunctions.o fft.o mafft-profile.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c f2cl.c f2cl.c: In function 'main': f2cl.c:282:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, B-1, orderfp ); ^ gcc -o f2cl mtxutl.o io.o f2cl.o constants.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c mccaskillwrap.c mccaskillwrap.c: In function 'main': mccaskillwrap.c:369:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( "tr -d '\\r' < _mccaskillinorg > _mccaskillin" ); // for cygwin, wakaran ^ mccaskillwrap.c: In function 'athread': mccaskillwrap.c:115:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ mccaskillwrap.c:117:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ mccaskillwrap.c:128:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); // for cygwin, wakaran ^ mccaskillwrap.c:152:10: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] system( com ); ^ mccaskillwrap.c: In function 'readrawmccaskill': mccaskillwrap.c:46:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, fp ); ^ gcc -o mccaskillwrap mtxutl.o io.o mccaskillwrap.o constants.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c contrafoldwrap.c contrafoldwrap.c: In function 'readcontrafold': contrafoldwrap.c:57:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 9999, fp ); ^ gcc -o contrafoldwrap mtxutl.o io.o contrafoldwrap.o constants.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c countlen.c gcc -o countlen mtxutl.o io.o countlen.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c seq2regtable.c gcc -o seq2regtable mtxutl.o io.o seq2regtable.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c regtable2seq.c regtable2seq.c: In function 'readereg': regtable2seq.c:69:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, regfp ); ^ regtable2seq.c:93:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, regfp ); ^ regtable2seq.c: In function 'readreg': regtable2seq.c:116:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( gett, 999, regfp ); ^ gcc -o regtable2seq mtxutl.o io.o regtable2seq.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c score.c gcc -o score io.o mtxutl.o mltaln9.o score.o constants.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c getlag.c gcc -o getlag mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o getlag.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c dndpre.c gcc -o dndpre dndpre.o io.o constants.o mtxutl.o mltaln9.o defs.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c setcore.c gcc -o setcore mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o setcore.o defs.o fft.o fftFunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c replaceu.c gcc -o replaceu mtxutl.o io.o replaceu.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c restoreu.c gcc -o restoreu mtxutl.o io.o restoreu.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c setdirection.c setdirection.c: In function 'main': setdirection.c:103:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets( line, 99, difp ); ^ gcc -o setdirection mtxutl.o io.o setdirection.o defs.o mltaln9.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c makedirectionlist.c gcc -o makedirectionlist mtxutl.o io.o mltaln9.o tddis.o constants.o partQalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Qalignmm.o Falign.o Falign_localhom.o Galign11.o SAalignmm.o MSalignmm.o Lalign11.o makedirectionlist.o defs.o fft.o fftFunctions.o addfunctions.o -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread gcc -o version version.c -Denablemultithread -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro sed "s:_LIBDIR:/usr/lib/mafft/lib/mafft:" mafft.tmpl > mafft sed "s:_BINDIR:/usr/lib/mafft/bin:" mafft-homologs.tmpl > mafft-homologs.rb cp mafft mafft-homologs.rb ../scripts chmod 755 ../scripts/* cp mafftash_premafft.pl dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version ../binaries chmod 755 ../binaries/* cp mafft.1 mafft-homologs.1 ../binaries done. make[2]: Leaving directory `/build/buildd/mafft-7.130/core' make[1]: Leaving directory `/build/buildd/mafft-7.130' dh_auto_test -a /usr/bin/fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a debian/rules override_dh_install make[1]: Entering directory `/build/buildd/mafft-7.130' /usr/bin/make -C core PREFIX=/build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft MANDIR=/build/buildd/mafft-7.130/debian/mafft/usr/share/man/man1 LIBDIR=/build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft install make[2]: Entering directory `/build/buildd/mafft-7.130/core' cp mafft mafft-homologs.rb ../scripts chmod 755 ../scripts/* cp mafftash_premafft.pl dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version ../binaries chmod 755 ../binaries/* cp mafft.1 mafft-homologs.1 ../binaries done. mkdir -p /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft chmod 755 /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft mkdir -p /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/bin chmod 755 /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/bin chmod 755 mafft mafft-homologs.rb install mafft mafft-homologs.rb /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/bin chmod 755 dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version install -s dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign pair2hat3s multi2hat3s pairash addsingle splittbfast disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap countlen seq2regtable regtable2seq score getlag dndpre setcore replaceu restoreu setdirection makedirectionlist version /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft install mafftash_premafft.pl /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft install -m 644 mafft.1 mafft-homologs.1 /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft ( cd /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/bin; \ rm -f linsi ginsi einsi fftns fftnsi nwns nwnsi xinsi qinsi; \ rm -f mafft-linsi mafft-ginsi mafft-einsi mafft-fftns mafft-fftnsi mafft-nwns mafft-nwnsi mafft-xinsi mafft-qinsi; \ ln -s mafft linsi; ln -s mafft ginsi; ln -s mafft fftns; \ ln -s mafft fftnsi; ln -s mafft nwns; ln -s mafft nwnsi; \ ln -s mafft einsi; \ ln -s mafft mafft-linsi; ln -s mafft mafft-ginsi; ln -s mafft mafft-fftns; \ ln -s mafft mafft-fftnsi; ln -s mafft mafft-nwns; ln -s mafft mafft-nwnsi; \ ln -s mafft mafft-einsi; ln -s mafft mafft-xinsi; ln -s mafft mafft-qinsi;\ rm -f mafft-profile mafft-profile.exe; ln -s /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft/mafft-profile .; \ rm -f mafft-distance mafft-distance.exe; ln -s /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft/mafft-distance . ) mkdir -p /build/buildd/mafft-7.130/debian/mafft/usr/share/man/man1 chmod 755 /build/buildd/mafft-7.130/debian/mafft/usr/share/man/man1 install -m 644 mafft.1 mafft-homologs.1 /build/buildd/mafft-7.130/debian/mafft/usr/share/man/man1 make[2]: Leaving directory `/build/buildd/mafft-7.130/core' rm /build/buildd/mafft-7.130/debian/mafft/usr/lib/mafft/lib/mafft/*.1 make[1]: Leaving directory `/build/buildd/mafft-7.130' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a debian/rules override_dh_compress make[1]: Entering directory `/build/buildd/mafft-7.130' dh_compress -X test/sample make[1]: Leaving directory `/build/buildd/mafft-7.130' dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: mafft dh_strip debug symbol extraction: packages to act on: mafft dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 mafft is already stripped, ignoring find: `/build/buildd/mafft-7.130/debian/mafft-dbgsym': No such file or directory dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: unknown information field 'Testsuite' in input data in general section of control info file dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: package mafft: unused substitution variable ${perl:Depends} dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 119 pkgstriptranslations: processing mafft (in debian/mafft); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/mafft/DEBIAN/control, package mafft, directory debian/mafft pkgstripfiles: Truncating usr/share/doc/mafft/changelog.Debian.gz to topmost ten records pkgstripfiles: PNG optimization for package mafft took 0 s dpkg-deb: warning: 'debian/mafft/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `mafft' in `../mafft_7.130-1_amd64.deb'. dpkg-genchanges -B -mUbuntu/amd64 Build Daemon >../mafft_7.130-1_amd64.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: warning: unknown information field 'Testsuite' in input data in general section of control info file dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build mafft-7.130 dpkg-source: warning: unknown information field 'Testsuite' in input data in general section of control info file dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20140119-0516 chroot-autobuild/build/buildd/mafft_7.130-1_amd64.deb: new debian package, version 2.0. size 771144 bytes: control archive= 2228 bytes. 1441 bytes, 31 lines control 3338 bytes, 48 lines md5sums Package: mafft Version: 7.130-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7683 Depends: libc6 (>= 2.14) Recommends: blast2, lynx, ruby Enhances: t-coffee Section: science Priority: optional Homepage: http://mafft.cbrc.jp/alignment/software/ Description: Multiple alignment program for amino acid or nucleotide sequences MAFFT is a multiple sequence alignment program which offers three accuracy-oriented methods: * L-INS-i (probably most accurate; recommended for <200 sequences; iterative refinement method incorporating local pairwise alignment information), * G-INS-i (suitable for sequences of similar lengths; recommended for <200 sequences; iterative refinement method incorporating global pairwise alignment information), * E-INS-i (suitable for sequences containing large unalignable regions; recommended for <200 sequences), and five speed-oriented methods: * FFT-NS-i (iterative refinement method; two cycles only), * FFT-NS-i (iterative refinement method; max. 1000 iterations), * FFT-NS-2 (fast; progressive method), * FFT-NS-1 (very fast; recommended for >2000 sequences; progressive method with a rough guide tree), * NW-NS-PartTree-1 (recommended for ∼50,000 sequences; progressive method with the PartTree algorithm). chroot-autobuild/build/buildd/mafft_7.130-1_amd64.deb: drwxr-xr-x root/root 0 2014-01-19 05:16 ./ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/bin/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/lib/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/lib/mafft/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/ -rwxr-xr-x root/root 75796 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft -rwxr-xr-x root/root 8263 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-homologs.rb drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/lib/mafft/lib/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/ -rwxr-xr-x root/root 211400 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/dndblast -rwxr-xr-x root/root 154096 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/restoreu -rwxr-xr-x root/root 199080 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/score -rwxr-xr-x root/root 383432 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/setcore -rwxr-xr-x root/root 383432 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/getlag -rwxr-xr-x root/root 150000 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/setdirection -rwxr-xr-x root/root 211368 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/mafft-distance -rwxr-xr-x root/root 412168 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/tbfast -rwxr-xr-x root/root 199112 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/dndpre -rwxr-xr-x root/root 6128 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/version -rwxr-xr-x root/root 203240 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/mccaskillwrap -rwxr-xr-x root/root 154096 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/regtable2seq -rwxr-xr-x root/root 6755 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/mafftash_premafft.pl -rwxr-xr-x root/root 150016 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/replaceu -rwxr-xr-x root/root 129416 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/f2cl -rwxr-xr-x root/root 428520 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/pairlocalalign -rwxr-xr-x root/root 199080 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/contrafoldwrap -rwxr-xr-x root/root 80360 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/seq2regtable -rwxr-xr-x root/root 211400 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/dndfast7 -rwxr-xr-x root/root 219560 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/multi2hat3s -rwxr-xr-x root/root 432712 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/dvtditr -rwxr-xr-x root/root 412104 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/splittbfast -rwxr-xr-x root/root 408008 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/pairash -rwxr-xr-x root/root 383432 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/mafft-profile -rwxr-xr-x root/root 395752 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/makedirectionlist -rwxr-xr-x root/root 207272 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/sextet5 -rwxr-xr-x root/root 219560 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/pair2hat3s -rwxr-xr-x root/root 408072 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/disttbfast -rwxr-xr-x root/root 416264 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/addsingle -rwxr-xr-x root/root 76264 2014-01-19 05:16 ./usr/lib/mafft/lib/mafft/countlen drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/doc/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/doc/mafft/ -rw-r--r-- root/root 1552 2014-01-19 05:16 ./usr/share/doc/mafft/changelog.Debian.gz -rw-r--r-- root/root 1961 2014-01-18 23:10 ./usr/share/doc/mafft/copyright drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/doc/mafft/test/ -rw-r--r-- root/root 29068 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.fftnsi -rw-r--r-- root/root 29320 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.ginsi -rw-r--r-- root/root 28888 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.lins1 -rw-r--r-- root/root 29824 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.linsi -rw-r--r-- root/root 29572 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.dpparttree -rw-r--r-- root/root 29176 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.fftns2 -rw-r--r-- root/root 29860 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.parttree -rw-r--r-- root/root 1502 2013-10-14 03:57 ./usr/share/doc/mafft/test/samplerna -rw-r--r-- root/root 29896 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample.gins1 -rw-r--r-- root/root 1916 2013-10-14 03:57 ./usr/share/doc/mafft/test/samplerna.xinsi -rw-r--r-- root/root 1916 2013-10-14 03:57 ./usr/share/doc/mafft/test/samplerna.qinsi -rw-r--r-- root/root 16616 2013-10-14 03:57 ./usr/share/doc/mafft/test/sample drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/man/ drwxr-xr-x root/root 0 2014-01-19 05:16 ./usr/share/man/man1/ -rw-r--r-- root/root 2130 2014-01-19 05:16 ./usr/share/man/man1/mafft-homologs.1.gz -rw-r--r-- root/root 4420 2014-01-19 05:16 ./usr/share/man/man1/mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/bin/mafft-homologs -> ../lib/mafft/bin/mafft-homologs.rb lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/bin/mafft -> ../lib/mafft/bin/mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-xinsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-distance -> ../lib/mafft/mafft-distance lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-nwnsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-einsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/nwns -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-linsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/fftns -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-fftnsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-nwns -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-qinsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-fftns -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/linsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/fftnsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-ginsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/nwnsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/ginsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/mafft-profile -> ../lib/mafft/mafft-profile lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/lib/mafft/bin/einsi -> mafft lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/fftns.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/fftnsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-einsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/einsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-ginsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-linsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/ginsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-fftns.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-profile.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/mafft-fftnsi.1.gz -> mafft.1.gz lrwxrwxrwx root/root 0 2014-01-19 05:16 ./usr/share/man/man1/linsi.1.gz -> mafft.1.gz mafft_7.130-1_amd64.changes: Format: 1.8 Date: Sun, 19 Jan 2014 08:25:50 +0900 Source: mafft Binary: mafft Architecture: amd64 Version: 7.130-1 Distribution: trusty-proposed Urgency: low Maintainer: Ubuntu/amd64 Build Daemon Changed-By: Charles Plessy Description: mafft - Multiple alignment program for amino acid or nucleotide sequences Changes: mafft (7.130-1) unstable; urgency=low . * New upstream release. * Correct ‘XS-Testsuite’ to ‘Testsuite’ in debian/control. Checksums-Sha1: ddc68c7e102ca766986f1bdd06b47edfd37f999a 771144 mafft_7.130-1_amd64.deb Checksums-Sha256: ddc1ad5939ab5db22791760a0dd10f26e538a0a99e1900eb2730286c840a9a88 771144 mafft_7.130-1_amd64.deb Files: df4696a0528496325765e92753a2b10f 771144 science optional mafft_7.130-1_amd64.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20140119-0516 Build needed 00:00:46, 72596k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-5477795'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-5477795/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-5477795'] Unmounting chroot for build PACKAGEBUILD-5477795... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-5477795'] Removing build PACKAGEBUILD-5477795