RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux z13-014 4.3.0-6-generic #17-Ubuntu SMP Mon Jan 11 21:29:24 UTC 2016 s390x Buildd toolchain package versions: launchpad-buildd_137 python-lpbuildd_137 sbuild_0.67.0-2ubuntu1 dpkg-dev_1.18.4ubuntu1 python-debian_0.1.27ubuntu1. Syncing the system clock with the buildd NTP service... 7 Feb 13:05:36 ntpdate[13218]: adjust time server 10.211.37.1 offset 0.000194 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-8979605', '/home/buildd/filecache-default/8808aeb45a9438550e8005f67e1dc6d720c06f47'] Unpacking chroot for build PACKAGEBUILD-8979605 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-8979605'] Mounting chroot for build PACKAGEBUILD-8979605 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-8979605', 'deb http://ftpmaster.internal/ubuntu xenial main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu xenial-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu xenial-updates main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu xenial-proposed main restricted universe multiverse'] Overriding sources.list in build-PACKAGEBUILD-8979605 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-8979605', 's390x'] Updating debian chroot for build PACKAGEBUILD-8979605 Ign http://archive-team.internal xenial InRelease Get:1 http://ftpmaster.internal xenial InRelease [237 kB] Ign http://archive-team.internal xenial Release.gpg Get:2 http://archive-team.internal xenial Release [755 B] Ign http://archive-team.internal xenial/main s390x Packages/DiffIndex Get:3 http://archive-team.internal xenial/main Translation-en [676 kB] Get:4 http://ftpmaster.internal xenial-security InRelease [82.2 kB] Get:5 http://ftpmaster.internal xenial-updates InRelease [82.2 kB] Get:6 http://ftpmaster.internal xenial-proposed InRelease [237 kB] Get:7 http://ftpmaster.internal xenial/main s390x Packages [1431 kB] Get:8 http://archive-team.internal xenial/main s390x Packages [1642 kB] Get:9 http://ftpmaster.internal xenial/restricted s390x Packages [28 B] Get:10 http://ftpmaster.internal xenial/universe s390x Packages [6889 kB] Get:11 http://ftpmaster.internal xenial/multiverse s390x Packages [115 kB] Get:12 http://ftpmaster.internal xenial/main Translation-en [853 kB] Get:13 http://ftpmaster.internal xenial/multiverse Translation-en [109 kB] Get:14 http://ftpmaster.internal xenial/restricted Translation-en [4302 B] Get:15 http://ftpmaster.internal xenial/universe Translation-en [4835 kB] Get:16 http://ftpmaster.internal xenial-security/main s390x Packages [28 B] Get:17 http://ftpmaster.internal xenial-security/restricted s390x Packages [28 B] Get:18 http://ftpmaster.internal xenial-security/universe s390x Packages [28 B] Get:19 http://ftpmaster.internal xenial-security/multiverse s390x Packages [28 B] Get:20 http://ftpmaster.internal xenial-security/main Translation-en [28 B] Get:21 http://ftpmaster.internal xenial-security/multiverse Translation-en [28 B] Get:22 http://ftpmaster.internal xenial-security/restricted Translation-en [28 B] Get:23 http://ftpmaster.internal xenial-security/universe Translation-en [28 B] Get:24 http://ftpmaster.internal xenial-updates/main s390x Packages [28 B] Get:25 http://ftpmaster.internal xenial-updates/restricted s390x Packages [28 B] Get:26 http://ftpmaster.internal xenial-updates/universe s390x Packages [28 B] Get:27 http://ftpmaster.internal xenial-updates/multiverse s390x Packages [28 B] Get:28 http://ftpmaster.internal xenial-updates/main Translation-en [28 B] Get:29 http://ftpmaster.internal xenial-updates/multiverse Translation-en [28 B] Get:30 http://ftpmaster.internal xenial-updates/restricted Translation-en [28 B] Get:31 http://ftpmaster.internal xenial-updates/universe Translation-en [28 B] Get:32 http://ftpmaster.internal xenial-proposed/main s390x Packages [69.9 kB] Get:33 http://ftpmaster.internal xenial-proposed/restricted s390x Packages [28 B] Get:34 http://ftpmaster.internal xenial-proposed/universe s390x Packages [520 kB] Get:35 http://ftpmaster.internal xenial-proposed/multiverse s390x Packages [6422 B] Get:36 http://ftpmaster.internal xenial-proposed/main Translation-en [41.6 kB] Get:37 http://ftpmaster.internal xenial-proposed/multiverse Translation-en [7416 B] Get:38 http://ftpmaster.internal xenial-proposed/restricted Translation-en [28 B] Get:39 http://ftpmaster.internal xenial-proposed/universe Translation-en [295 kB] Fetched 18.1 MB in 8s (2151 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: perl-modules* The following NEW packages will be installed: init-system-helpers libapt-pkg5.0 libitm1 libperl5.22 libprocps4 perl-modules-5.22 The following packages will be upgraded: apt apt-transport-https base-passwd binutils bsdutils ca-certificates cpp-5 debianutils diffutils dmsetup dpkg dpkg-dev findutils g++-5 gcc-5 gcc-5-base gnupg gpgv grep init initscripts libacl1 libapparmor1 libapt-pkg4.16 libasn1-8-heimdal libatomic1 libaudit-common libaudit1 libblkid1 libcc1-0 libcurl3-gnutls libdevmapper1.02.1 libdpkg-perl libfdisk1 libffi6 libgcc-5-dev libgcc1 libgcrypt20 libgnutls-deb0-28 libgomp1 libgpg-error0 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhogweed4 libhx509-5-heimdal libisl15 libkeyutils1 libkrb5-26-heimdal libldap-2.4-2 libmount1 libmpfr4 libncurses5 libncursesw5 libnettle6 libp11-kit0 libpcre3 libpng12-0 libreadline6 libroken18-heimdal librtmp1 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libssl1.0.0 libstdc++-5-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libudev1 libusb-0.1-4 libuuid1 libwind0-heimdal linux-libc-dev login lsb-base make mount ncurses-base ncurses-bin openssl passwd perl perl-base pkgbinarymangler procps readline-common systemd systemd-sysv sysv-rc sysvinit-utils tzdata udev util-linux 99 upgraded, 6 newly installed, 1 to remove and 0 not upgraded. Need to get 110 MB of archives. After this operation, 30.7 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libapt-pkg4.16 Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ xenial-proposed/main bsdutils s390x 1:2.27.1-1ubuntu4 [50.8 kB] Get:2 http://archive-team.internal/bootstrap/s390x-stage2/ xenial/main libapt-pkg4.16 s390x 1.0.10.2ubuntu1 [601 kB] Get:3 http://ftpmaster.internal/ubuntu/ xenial/main debianutils s390x 4.7 [85.6 kB] Get:4 http://ftpmaster.internal/ubuntu/ xenial/main diffutils s390x 1:3.3-3 [158 kB] Get:5 http://ftpmaster.internal/ubuntu/ xenial/main dpkg s390x 1.18.4ubuntu1 [2115 kB] Get:6 http://ftpmaster.internal/ubuntu/ xenial/main findutils s390x 4.6.0-2 [277 kB] Get:7 http://ftpmaster.internal/ubuntu/ xenial-proposed/main grep s390x 2.22-1 [145 kB] Get:8 http://ftpmaster.internal/ubuntu/ xenial-proposed/main init-system-helpers all 1.28ubuntu1 [31.2 kB] Get:9 http://ftpmaster.internal/ubuntu/ xenial/main sysvinit-utils s390x 2.88dsf-59.3ubuntu2 [22.0 kB] Get:10 http://ftpmaster.internal/ubuntu/ xenial/main perl-modules-5.22 all 5.22.1-5 [2639 kB] Get:11 http://ftpmaster.internal/ubuntu/ xenial/main libperl5.22 s390x 5.22.1-5 [3218 kB] Get:12 http://ftpmaster.internal/ubuntu/ xenial/main perl s390x 5.22.1-5 [238 kB] Get:13 http://ftpmaster.internal/ubuntu/ xenial/main perl-base s390x 5.22.1-5 [1245 kB] Get:14 http://ftpmaster.internal/ubuntu/ xenial-proposed/main init s390x 1.28ubuntu1 [4390 B] Get:15 http://ftpmaster.internal/ubuntu/ xenial/main login s390x 1:4.2-3.1ubuntu2 [303 kB] Get:16 http://ftpmaster.internal/ubuntu/ xenial/main libncurses5 s390x 6.0+20151024-2ubuntu2 [90.2 kB] Get:17 http://ftpmaster.internal/ubuntu/ xenial/main libtinfo5 s390x 6.0+20151024-2ubuntu2 [75.4 kB] Get:18 http://ftpmaster.internal/ubuntu/ xenial/main libncursesw5 s390x 6.0+20151024-2ubuntu2 [108 kB] Get:19 http://ftpmaster.internal/ubuntu/ xenial/main libudev1 s390x 228-5ubuntu3 [55.2 kB] Get:20 http://ftpmaster.internal/ubuntu/ xenial/main udev s390x 228-5ubuntu3 [946 kB] Get:21 http://ftpmaster.internal/ubuntu/ xenial/main sysv-rc all 2.88dsf-59.3ubuntu2 [18.2 kB] Get:22 http://ftpmaster.internal/ubuntu/ xenial/main libsystemd0 s390x 228-5ubuntu3 [190 kB] Get:23 http://ftpmaster.internal/ubuntu/ xenial/main systemd s390x 228-5ubuntu3 [3233 kB] Get:24 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libacl1 s390x 2.2.52-3 [15.8 kB] Get:25 http://ftpmaster.internal/ubuntu/ xenial/main libaudit-common all 1:2.4.5-1ubuntu2 [3884 B] Get:26 http://ftpmaster.internal/ubuntu/ xenial/main libaudit1 s390x 1:2.4.5-1ubuntu2 [34.7 kB] Get:27 http://ftpmaster.internal/ubuntu/ xenial/main libpcre3 s390x 2:8.38-1ubuntu1 [155 kB] Get:28 http://ftpmaster.internal/ubuntu/ xenial/main libselinux1 s390x 2.4-3build1 [53.2 kB] Get:29 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libsemanage-common all 2.4-3build1 [6594 B] Get:30 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libsemanage1 s390x 2.4-3build1 [74.1 kB] Get:31 http://ftpmaster.internal/ubuntu/ xenial/main lsb-base all 9.20160110 [13.5 kB] Get:32 http://ftpmaster.internal/ubuntu/ xenial/main passwd s390x 1:4.2-3.1ubuntu2 [774 kB] Get:33 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libuuid1 s390x 2.27.1-1ubuntu4 [14.8 kB] Get:34 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libblkid1 s390x 2.27.1-1ubuntu4 [101 kB] Get:35 http://ftpmaster.internal/ubuntu/ xenial/main libprocps4 s390x 2:3.3.10-4ubuntu2 [31.7 kB] Get:36 http://ftpmaster.internal/ubuntu/ xenial/main procps s390x 2:3.3.10-4ubuntu2 [221 kB] Get:37 http://ftpmaster.internal/ubuntu/ xenial/main libapparmor1 s390x 2.10-0ubuntu12 [28.1 kB] Get:38 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libmount1 s390x 2.27.1-1ubuntu4 [108 kB] Get:39 http://ftpmaster.internal/ubuntu/ xenial/main initscripts s390x 2.88dsf-59.3ubuntu2 [24.5 kB] Get:40 http://ftpmaster.internal/ubuntu/ xenial/main tzdata all 2016a-1 [168 kB] Get:41 http://ftpmaster.internal/ubuntu/ xenial-proposed/main util-linux s390x 2.27.1-1ubuntu4 [835 kB] Get:42 http://ftpmaster.internal/ubuntu/ xenial-proposed/main mount s390x 2.27.1-1ubuntu4 [119 kB] Get:43 http://ftpmaster.internal/ubuntu/ xenial/main ncurses-bin s390x 6.0+20151024-2ubuntu2 [134 kB] Get:44 http://ftpmaster.internal/ubuntu/ xenial/main libcc1-0 s390x 5.3.1-8ubuntu2 [38.5 kB] Get:45 http://ftpmaster.internal/ubuntu/ xenial-proposed/main binutils s390x 2.26-3ubuntu1 [1057 kB] Get:46 http://ftpmaster.internal/ubuntu/ xenial/main gcc-5-base s390x 5.3.1-8ubuntu2 [16.4 kB] Get:47 http://ftpmaster.internal/ubuntu/ xenial/main libgcc1 s390x 1:5.3.1-8ubuntu2 [24.8 kB] Get:48 http://ftpmaster.internal/ubuntu/ xenial/main libgomp1 s390x 5.3.1-8ubuntu2 [53.7 kB] Get:49 http://ftpmaster.internal/ubuntu/ xenial/main libitm1 s390x 5.3.1-8ubuntu2 [26.5 kB] Get:50 http://ftpmaster.internal/ubuntu/ xenial/main libatomic1 s390x 5.3.1-8ubuntu2 [7976 B] Get:51 http://ftpmaster.internal/ubuntu/ xenial/main g++-5 s390x 5.3.1-8ubuntu2 [27.2 MB] Get:52 http://ftpmaster.internal/ubuntu/ xenial/main libstdc++-5-dev s390x 5.3.1-8ubuntu2 [1377 kB] Get:53 http://ftpmaster.internal/ubuntu/ xenial/main libgcc-5-dev s390x 5.3.1-8ubuntu2 [246 kB] Get:54 http://ftpmaster.internal/ubuntu/ xenial/main gcc-5 s390x 5.3.1-8ubuntu2 [25.5 MB] Get:55 http://ftpmaster.internal/ubuntu/ xenial/main cpp-5 s390x 5.3.1-8ubuntu2 [25.1 MB] Get:56 http://ftpmaster.internal/ubuntu/ xenial/main libstdc++6 s390x 5.3.1-8ubuntu2 [398 kB] Get:57 http://ftpmaster.internal/ubuntu/ xenial/main libisl15 s390x 0.16.1-1 [497 kB] Get:58 http://ftpmaster.internal/ubuntu/ xenial/main libmpfr4 s390x 3.1.3-2 [187 kB] Get:59 http://ftpmaster.internal/ubuntu/ xenial/main libapt-pkg5.0 s390x 1.1.10 [642 kB] Get:60 http://ftpmaster.internal/ubuntu/ xenial/main apt s390x 1.1.10 [948 kB] Get:61 http://ftpmaster.internal/ubuntu/ xenial/main gpgv s390x 1.4.20-1ubuntu1 [160 kB] Get:62 http://ftpmaster.internal/ubuntu/ xenial/main readline-common all 6.3-8ubuntu2 [51.4 kB] Get:63 http://ftpmaster.internal/ubuntu/ xenial/main libreadline6 s390x 6.3-8ubuntu2 [112 kB] Get:64 http://ftpmaster.internal/ubuntu/ xenial/main libusb-0.1-4 s390x 2:0.1.12-28 [16.4 kB] Get:65 http://ftpmaster.internal/ubuntu/ xenial/main gnupg s390x 1.4.20-1ubuntu1 [611 kB] Get:66 http://ftpmaster.internal/ubuntu/ xenial/main base-passwd s390x 3.5.39 [50.7 kB] Get:67 http://ftpmaster.internal/ubuntu/ xenial/main ncurses-base all 6.0+20151024-2ubuntu2 [17.2 kB] Get:68 http://ftpmaster.internal/ubuntu/ xenial/main systemd-sysv s390x 228-5ubuntu3 [16.7 kB] Get:69 http://ftpmaster.internal/ubuntu/ xenial/main libdevmapper1.02.1 s390x 2:1.02.110-1ubuntu4 [133 kB] Get:70 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libfdisk1 s390x 2.27.1-1ubuntu4 [130 kB] Get:71 http://ftpmaster.internal/ubuntu/ xenial/main libgpg-error0 s390x 1.21-1 [33.7 kB] Get:72 http://ftpmaster.internal/ubuntu/ xenial/main libgcrypt20 s390x 1.6.4-5 [297 kB] Get:73 http://ftpmaster.internal/ubuntu/ xenial-proposed/main libsmartcols1 s390x 2.27.1-1ubuntu4 [59.8 kB] Get:74 http://ftpmaster.internal/ubuntu/ xenial/main libffi6 s390x 3.2.1-4 [16.3 kB] Get:75 http://ftpmaster.internal/ubuntu/ xenial/main libhogweed4 s390x 3.2-1 [135 kB] Get:76 http://ftpmaster.internal/ubuntu/ xenial/main libnettle6 s390x 3.2-1 [104 kB] Get:77 http://ftpmaster.internal/ubuntu/ xenial/main libp11-kit0 s390x 0.23.2-3 [97.5 kB] Get:78 http://ftpmaster.internal/ubuntu/ xenial/main libtasn1-6 s390x 4.7-3 [41.4 kB] Get:79 http://ftpmaster.internal/ubuntu/ xenial/main libgnutls-deb0-28 s390x 3.3.20-1ubuntu1 [466 kB] Get:80 http://ftpmaster.internal/ubuntu/ xenial/main libpng12-0 s390x 1.2.54-1ubuntu1 [114 kB] Get:81 http://ftpmaster.internal/ubuntu/ xenial/main libsqlite3-0 s390x 3.10.2-1 [376 kB] Get:82 http://ftpmaster.internal/ubuntu/ xenial/main libssl1.0.0 s390x 1.0.2f-2ubuntu1 [795 kB] Get:83 http://ftpmaster.internal/ubuntu/ xenial/main libseccomp2 s390x 2.2.3-2ubuntu3 [37.7 kB] Get:84 http://ftpmaster.internal/ubuntu/ xenial/main libroken18-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [39.6 kB] Get:85 http://ftpmaster.internal/ubuntu/ xenial/main libasn1-8-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [148 kB] Get:86 http://ftpmaster.internal/ubuntu/ xenial/main libhcrypto4-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [81.3 kB] Get:87 http://ftpmaster.internal/ubuntu/ xenial/main libheimbase1-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [27.6 kB] Get:88 http://ftpmaster.internal/ubuntu/ xenial/main libwind0-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [48.2 kB] Get:89 http://ftpmaster.internal/ubuntu/ xenial/main libhx509-5-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [99.7 kB] Get:90 http://ftpmaster.internal/ubuntu/ xenial/main libkrb5-26-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [188 kB] Get:91 http://ftpmaster.internal/ubuntu/ xenial/main libheimntlm0-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [14.7 kB] Get:92 http://ftpmaster.internal/ubuntu/ xenial/main libgssapi3-heimdal s390x 1.7~git20150920+dfsg-4ubuntu1 [88.5 kB] Get:93 http://ftpmaster.internal/ubuntu/ xenial/main libldap-2.4-2 s390x 2.4.42+dfsg-2ubuntu1 [152 kB] Get:94 http://ftpmaster.internal/ubuntu/ xenial/main librtmp1 s390x 2.4+20151223.gitfa8646d-1 [52.1 kB] Get:95 http://ftpmaster.internal/ubuntu/ xenial/main libcurl3-gnutls s390x 7.47.0-1ubuntu1 [173 kB] Get:96 http://ftpmaster.internal/ubuntu/ xenial/main apt-transport-https s390x 1.1.10 [24.3 kB] Get:97 http://ftpmaster.internal/ubuntu/ xenial/main openssl s390x 1.0.2f-2ubuntu1 [477 kB] Get:98 http://ftpmaster.internal/ubuntu/ xenial-proposed/main ca-certificates all 20160104 [191 kB] Get:99 http://ftpmaster.internal/ubuntu/ xenial/main libkeyutils1 s390x 1.5.9-8ubuntu1 [9918 B] Get:100 http://ftpmaster.internal/ubuntu/ xenial/main dmsetup s390x 2:1.02.110-1ubuntu4 [57.4 kB] Get:101 http://ftpmaster.internal/ubuntu/ xenial/main dpkg-dev all 1.18.4ubuntu1 [584 kB] Get:102 http://ftpmaster.internal/ubuntu/ xenial/main libdpkg-perl all 1.18.4ubuntu1 [195 kB] Get:103 http://ftpmaster.internal/ubuntu/ xenial/main make s390x 4.1-5 [149 kB] Get:104 http://ftpmaster.internal/ubuntu/ xenial-proposed/main linux-libc-dev s390x 4.4.0-4.19 [819 kB] Get:105 http://ftpmaster.internal/ubuntu/ xenial/main pkgbinarymangler all 129 [43.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 110 MB in 1min 48s (1013 kB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11407 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.27.1-1ubuntu4_s390x.deb ... Unpacking bsdutils (1:2.27.1-1ubuntu4) over (1:2.27.1-1ubuntu3) ... Setting up bsdutils (1:2.27.1-1ubuntu4) ... (Reading database ... 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Setting up init-system-helpers (1.28ubuntu1) ... dpkg: perl-modules: dependency problems, but removing anyway as you requested: perl depends on perl-modules (>= 5.20.2-6). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11416 files and directories currently installed.) Removing perl-modules (5.20.2-6) ... Purging configuration files for perl-modules (5.20.2-6) ... (Reading database ... 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Unpacking libperl5.22:s390x (5.22.1-5) ... Preparing to unpack .../perl-base_5.22.1-5_s390x.deb ... Unpacking perl-base (5.22.1-5) over (5.20.2-6) ... Setting up perl-base (5.22.1-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11992 files and directories currently installed.) Preparing to unpack .../init_1.28ubuntu1_s390x.deb ... Unpacking init (1.28ubuntu1) over (1.24ubuntu2) ... Setting up init (1.28ubuntu1) ... (Reading database ... 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Setting up libtinfo5:s390x (6.0+20151024-2ubuntu2) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11992 files and directories currently installed.) Preparing to unpack .../libncursesw5_6.0+20151024-2ubuntu2_s390x.deb ... Unpacking libncursesw5:s390x (6.0+20151024-2ubuntu2) over (5.9+20150516-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libncursesw5:s390x (6.0+20151024-2ubuntu2) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11992 files and directories currently installed.) Preparing to unpack .../libudev1_228-5ubuntu3_s390x.deb ... Unpacking libudev1:s390x (228-5ubuntu3) over (228-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libudev1:s390x (228-5ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... 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(Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11984 files and directories currently installed.) Preparing to unpack .../libsystemd0_228-5ubuntu3_s390x.deb ... Unpacking libsystemd0:s390x (228-5ubuntu3) over (228-2ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libsystemd0:s390x (228-5ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11983 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.4-3build1_all.deb ... Unpacking libsemanage-common (2.4-3build1) over (2.3-1build2) ... Setting up libsemanage-common (2.4-3build1) ... Installing new version of config file /etc/selinux/semanage.conf ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11983 files and directories currently installed.) Preparing to unpack .../lsb-base_9.20160110_all.deb ... Unpacking lsb-base (9.20160110) over (9.20150917ubuntu1) ... Setting up lsb-base (9.20160110) ... (Reading database ... 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Unpacking libapparmor1:s390x (2.10-0ubuntu12) over (2.10-0ubuntu8) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libapparmor1:s390x (2.10-0ubuntu12) ... Processing triggers for systemd (228-5ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11995 files and directories currently installed.) Preparing to unpack .../libmount1_2.27.1-1ubuntu4_s390x.deb ... Unpacking libmount1:s390x (2.27.1-1ubuntu4) over (2.27.1-1ubuntu3) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libmount1:s390x (2.27.1-1ubuntu4) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11995 files and directories currently installed.) Preparing to unpack .../initscripts_2.88dsf-59.3ubuntu2_s390x.deb ... Unpacking initscripts (2.88dsf-59.3ubuntu2) over (2.88dsf-59.2ubuntu3) ... Processing triggers for systemd (228-5ubuntu3) ... Setting up initscripts (2.88dsf-59.3ubuntu2) ... Installing new version of config file /etc/init.d/checkfs.sh ... Installing new version of config file /etc/init.d/checkroot.sh ... Installing new version of config file /etc/init.d/mountall.sh ... Installing new version of config file /etc/default/rcS ... Processing triggers for systemd (228-5ubuntu3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11995 files and directories currently installed.) Preparing to unpack .../tzdata_2016a-1_all.deb ... Unpacking tzdata (2016a-1) over (2015g-1) ... Setting up tzdata (2016a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Feb 7 13:07:46 UTC 2016. Universal Time is now: Sun Feb 7 13:07:46 UTC 2016. Run 'dpkg-reconfigure tzdata' if you wish to change it. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11995 files and directories currently installed.) Preparing to unpack .../util-linux_2.27.1-1ubuntu4_s390x.deb ... Unpacking util-linux (2.27.1-1ubuntu4) over (2.27.1-1ubuntu3) ... Setting up util-linux (2.27.1-1ubuntu4) ... Installing new version of config file /etc/init/hwclock-save.conf ... Installing new version of config file /etc/init/hwclock.conf ... Processing triggers for systemd (228-5ubuntu3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11995 files and directories currently installed.) Preparing to unpack .../mount_2.27.1-1ubuntu4_s390x.deb ... Unpacking mount (2.27.1-1ubuntu4) over (2.27.1-1ubuntu3) ... Setting up mount (2.27.1-1ubuntu4) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11991 files and directories currently installed.) Preparing to unpack .../libcc1-0_5.3.1-8ubuntu2_s390x.deb ... Unpacking libcc1-0:s390x (5.3.1-8ubuntu2) over (5.2.1-27ubuntu1) ... Preparing to unpack .../binutils_2.26-3ubuntu1_s390x.deb ... Unpacking binutils (2.26-3ubuntu1) over (2.25.90.20151125-2ubuntu1) ... Preparing to unpack .../gcc-5-base_5.3.1-8ubuntu2_s390x.deb ... Unpacking gcc-5-base:s390x (5.3.1-8ubuntu2) over (5.2.1-27ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up gcc-5-base:s390x (5.3.1-8ubuntu2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11991 files and directories currently installed.) Preparing to unpack .../libgcc1_1%3a5.3.1-8ubuntu2_s390x.deb ... Unpacking libgcc1:s390x (1:5.3.1-8ubuntu2) over (1:5.2.1-27ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up libgcc1:s390x (1:5.3.1-8ubuntu2) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11991 files and directories currently installed.) Preparing to unpack .../libgomp1_5.3.1-8ubuntu2_s390x.deb ... Unpacking libgomp1:s390x (5.3.1-8ubuntu2) over (5.2.1-27ubuntu1) ... Selecting previously unselected package libitm1:s390x. Preparing to unpack .../libitm1_5.3.1-8ubuntu2_s390x.deb ... Unpacking libitm1:s390x (5.3.1-8ubuntu2) ... 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Setting up libstdc++6:s390x (5.3.1-8ubuntu2) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11998 files and directories currently installed.) Preparing to unpack .../libisl15_0.16.1-1_s390x.deb ... Unpacking libisl15:s390x (0.16.1-1) over (0.15-3) ... Preparing to unpack .../libmpfr4_3.1.3-2_s390x.deb ... Unpacking libmpfr4:s390x (3.1.3-2) over (3.1.3-1) ... 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Unpacking libdpkg-perl (1.18.4ubuntu1) over (1.18.3ubuntu1) ... Preparing to unpack .../archives/make_4.1-5_s390x.deb ... Unpacking make (4.1-5) over (4.0-8.2) ... Preparing to unpack .../linux-libc-dev_4.4.0-4.19_s390x.deb ... Unpacking linux-libc-dev:s390x (4.4.0-4.19) over (4.3.0-1.10) ... Preparing to unpack .../pkgbinarymangler_129_all.deb ... Unpacking pkgbinarymangler (129) over (123) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up perl-modules-5.22 (5.22.1-5) ... Setting up libperl5.22:s390x (5.22.1-5) ... Setting up perl (5.22.1-5) ... Setting up libncurses5:s390x (6.0+20151024-2ubuntu2) ... Setting up libprocps4:s390x (2:3.3.10-4ubuntu2) ... Setting up procps (2:3.3.10-4ubuntu2) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up udev (228-5ubuntu3) ... Installing new version of config file /etc/init.d/udev ... addgroup: The group `input' already exists as a system group. Exiting. Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Removing obsolete conffile /etc/init.d/lvm2 ... Setting up libcc1-0:s390x (5.3.1-8ubuntu2) ... Setting up binutils (2.26-3ubuntu1) ... Setting up libgomp1:s390x (5.3.1-8ubuntu2) ... Setting up libitm1:s390x (5.3.1-8ubuntu2) ... Setting up libatomic1:s390x (5.3.1-8ubuntu2) ... Setting up libisl15:s390x (0.16.1-1) ... Setting up libmpfr4:s390x (3.1.3-2) ... Setting up cpp-5 (5.3.1-8ubuntu2) ... Setting up libgcc-5-dev:s390x (5.3.1-8ubuntu2) ... Setting up gcc-5 (5.3.1-8ubuntu2) ... Setting up libstdc++-5-dev:s390x (5.3.1-8ubuntu2) ... Setting up g++-5 (5.3.1-8ubuntu2) ... Setting up apt (1.1.10) ... Installing new version of config file /etc/apt/apt.conf.d/01-vendor-ubuntu ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt ... Installing new version of config file /etc/kernel/postinst.d/apt-auto-removal ... usermod: no changes Setting up libffi6:s390x (3.2.1-4) ... Setting up libnettle6:s390x (3.2-1) ... Setting up libhogweed4:s390x (3.2-1) ... Setting up libp11-kit0:s390x (0.23.2-3) ... Setting up libtasn1-6:s390x (4.7-3) ... Setting up libgnutls-deb0-28:s390x (3.3.20-1ubuntu1) ... Setting up libpng12-0:s390x (1.2.54-1ubuntu1) ... Setting up libsqlite3-0:s390x (3.10.2-1) ... Setting up libssl1.0.0:s390x (1.0.2f-2ubuntu1) ... Setting up libseccomp2:s390x (2.2.3-2ubuntu3) ... Setting up libroken18-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libasn1-8-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libhcrypto4-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libheimbase1-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libwind0-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libhx509-5-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libkrb5-26-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libheimntlm0-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libgssapi3-heimdal:s390x (1.7~git20150920+dfsg-4ubuntu1) ... Setting up libldap-2.4-2:s390x (2.4.42+dfsg-2ubuntu1) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d-1) ... Setting up libcurl3-gnutls:s390x (7.47.0-1ubuntu1) ... Setting up apt-transport-https (1.1.10) ... Setting up openssl (1.0.2f-2ubuntu1) ... Setting up ca-certificates (20160104) ... Setting up libkeyutils1:s390x (1.5.9-8ubuntu1) ... Setting up dmsetup (2:1.02.110-1ubuntu4) ... Setting up libdpkg-perl (1.18.4ubuntu1) ... Setting up make (4.1-5) ... Setting up dpkg-dev (1.18.4ubuntu1) ... Setting up linux-libc-dev:s390x (4.4.0-4.19) ... Setting up pkgbinarymangler (129) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Processing triggers for systemd (228-5ubuntu3) ... Processing triggers for ca-certificates (20160104) ... Updating certificates in /etc/ssl/certs... 6 added, 20 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-8979605', 's390x', 'xenial-proposed', '-c', 'chroot:autobuild', '--arch=s390x', '--dist=xenial-proposed', '--purge=never', '--nolog', 'abyss_1.9.0-1build1.dsc'] Initiating build PACKAGEBUILD-8979605 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.3.0-6-generic #17-Ubuntu SMP Mon Jan 11 21:29:24 UTC 2016 s390x sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on z13-014.buildd +==============================================================================+ | abyss 1.9.0-1build1 (s390x) 07 Feb 2016 13:08 | +==============================================================================+ Package: abyss Version: 1.9.0-1build1 Source Version: 1.9.0-1build1 Distribution: xenial-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x I: NOTICE: Log filtering will replace 'build/abyss-rktFXI/abyss-1.9.0' with '<>' I: NOTICE: Log filtering will replace 'build/abyss-rktFXI' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-8979605/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- abyss_1.9.0-1build1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-aq7mM8/apt_archive/sbuild-build-depends-core-dummy.deb'. Get:1 file:/<>/resolver-aq7mM8/apt_archive ./ InRelease Ign:1 file:/<>/resolver-aq7mM8/apt_archive ./ InRelease Get:2 file:/<>/resolver-aq7mM8/apt_archive ./ Release [2119 B] Get:2 file:/<>/resolver-aq7mM8/apt_archive ./ Release [2119 B] Get:3 file:/<>/resolver-aq7mM8/apt_archive ./ Release.gpg Ign:3 file:/<>/resolver-aq7mM8/apt_archive ./ Release.gpg Get:4 file:/<>/resolver-aq7mM8/apt_archive ./ Sources [214 B] Get:5 file:/<>/resolver-aq7mM8/apt_archive ./ Packages [527 B] Ign:4 file:/<>/resolver-aq7mM8/apt_archive ./ Sources Get:4 file:/<>/resolver-aq7mM8/apt_archive ./ Sources [214 B] Ign:5 file:/<>/resolver-aq7mM8/apt_archive ./ Packages Get:5 file:/<>/resolver-aq7mM8/apt_archive ./ Packages [527 B] Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/772 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 file:/<>/resolver-aq7mM8/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [772 B] debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12016 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 9), dh-autoreconf, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev Filtered Build-Depends: debhelper (>= 9), dh-autoreconf, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev dpkg-deb: building package 'sbuild-build-depends-abyss-dummy' in '/<>/resolver-4w18QK/apt_archive/sbuild-build-depends-abyss-dummy.deb'. Get:1 file:/<>/resolver-4w18QK/apt_archive ./ InRelease Ign:1 file:/<>/resolver-4w18QK/apt_archive ./ InRelease Get:2 file:/<>/resolver-4w18QK/apt_archive ./ Release [2119 B] Get:2 file:/<>/resolver-4w18QK/apt_archive ./ Release [2119 B] Get:3 file:/<>/resolver-4w18QK/apt_archive ./ Release.gpg Ign:3 file:/<>/resolver-4w18QK/apt_archive ./ Release.gpg Get:4 file:/<>/resolver-4w18QK/apt_archive ./ Sources [276 B] Get:5 file:/<>/resolver-4w18QK/apt_archive ./ Packages [598 B] Ign:4 file:/<>/resolver-4w18QK/apt_archive ./ Sources Get:4 file:/<>/resolver-4w18QK/apt_archive ./ Sources [276 B] Ign:5 file:/<>/resolver-4w18QK/apt_archive ./ Packages Get:5 file:/<>/resolver-4w18QK/apt_archive ./ Packages [598 B] Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install abyss build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasprintf0v5 libboost-graph-dev libboost-graph1.58-dev libboost-graph1.58.0 libboost-regex1.58.0 libboost-serialization1.58-dev libboost-serialization1.58.0 libboost-test1.58-dev libboost-test1.58.0 libboost1.58-dev libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libicu55 libltdl-dev libltdl7 libmagic1 libopenmpi-dev libopenmpi1.10 libpipeline1 libsigsegv2 libsparsehash-dev libsqlite3-dev libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool libunistring0 liburi-perl libxml2 m4 man-db openmpi-common po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc groff graphviz libboost1.58-doc libboost-atomic1.58-dev libboost-chrono1.58-dev libboost-context1.58-dev libboost-coroutine1.58-dev libboost-date-time1.58-dev libboost-exception1.58-dev libboost-filesystem1.58-dev libboost-graph-parallel1.58-dev libboost-iostreams1.58-dev libboost-locale1.58-dev libboost-log1.58-dev libboost-math1.58-dev libboost-mpi1.58-dev libboost-mpi-python1.58-dev libboost-program-options1.58-dev libboost-python1.58-dev libboost-random1.58-dev libboost-regex1.58-dev libboost-signals1.58-dev libboost-system1.58-dev libboost-thread1.58-dev libboost-timer1.58-dev libboost-wave1.58-dev libboost1.58-tools-dev libmpfrc++-dev libntl-dev libdata-dump-perl libhwloc-contrib-plugins libtool-doc sqlite3-doc gfortran | fortran95-compiler gcj-jdk libwww-perl less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xdg-user-dirs libhttp-message-perl libhwloc-plugins openmpi-bin xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasprintf0v5 libboost-graph-dev libboost-graph1.58-dev libboost-graph1.58.0 libboost-regex1.58.0 libboost-serialization1.58-dev libboost-serialization1.58.0 libboost-test1.58-dev libboost-test1.58.0 libboost1.58-dev libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libicu55 libltdl-dev libltdl7 libmagic1 libopenmpi-dev libopenmpi1.10 libpipeline1 libsigsegv2 libsparsehash-dev libsqlite3-dev libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool libunistring0 liburi-perl libxml2 m4 man-db openmpi-common po-debconf sbuild-build-depends-abyss-dummy 0 upgraded, 56 newly installed, 0 to remove and 0 not upgraded. Need to get 27.3 MB/27.3 MB of archives. After this operation, 197 MB of additional disk space will be used. Get:1 file:/<>/resolver-4w18QK/apt_archive ./ sbuild-build-depends-abyss-dummy 0.invalid.0 [840 B] Get:2 http://ftpmaster.internal/ubuntu xenial/main s390x groff-base s390x 1.22.3-7 [1199 kB] Get:3 http://ftpmaster.internal/ubuntu xenial/main s390x bsdmainutils s390x 9.0.6ubuntu2 [178 kB] Get:4 http://ftpmaster.internal/ubuntu xenial/main s390x libpipeline1 s390x 1.4.1-2 [24.8 kB] Get:5 http://ftpmaster.internal/ubuntu xenial/main s390x man-db s390x 2.7.5-1 [850 kB] Get:6 http://ftpmaster.internal/ubuntu xenial/main s390x libmagic1 s390x 1:5.25-2ubuntu1 [214 kB] Get:7 http://ftpmaster.internal/ubuntu xenial/main s390x file s390x 1:5.25-2ubuntu1 [21.5 kB] Get:8 http://ftpmaster.internal/ubuntu xenial/main s390x libasprintf0v5 s390x 0.19.7-2ubuntu2 [6324 B] Get:9 http://ftpmaster.internal/ubuntu xenial/main s390x gettext-base s390x 0.19.7-2ubuntu2 [47.7 kB] Get:10 http://ftpmaster.internal/ubuntu xenial/main s390x libglib2.0-0 s390x 2.47.5-1 [1046 kB] Get:11 http://ftpmaster.internal/ubuntu xenial/main s390x libicu55 s390x 55.1-7 [7479 kB] Get:12 http://ftpmaster.internal/ubuntu xenial/main s390x libxml2 s390x 2.9.3+dfsg1-1 [641 kB] Get:13 http://ftpmaster.internal/ubuntu xenial/main s390x libsigsegv2 s390x 2.10-4 [13.4 kB] Get:14 http://ftpmaster.internal/ubuntu xenial/main s390x m4 s390x 1.4.17-5 [192 kB] Get:15 http://ftpmaster.internal/ubuntu xenial/main s390x autoconf all 2.69-9 [321 kB] Get:16 http://ftpmaster.internal/ubuntu xenial/main s390x autotools-dev all 20150820.1 [39.8 kB] Get:17 http://ftpmaster.internal/ubuntu xenial/main s390x automake all 1:1.15-1ubuntu1 [511 kB] Get:18 http://ftpmaster.internal/ubuntu xenial/main s390x autopoint all 0.19.7-2ubuntu2 [406 kB] Get:19 http://ftpmaster.internal/ubuntu xenial/main s390x libcroco3 s390x 0.6.11-1 [76.5 kB] Get:20 http://ftpmaster.internal/ubuntu xenial/main s390x libunistring0 s390x 0.9.3-5.2ubuntu1 [262 kB] Get:21 http://ftpmaster.internal/ubuntu xenial/main s390x gettext s390x 0.19.7-2ubuntu2 [1052 kB] Get:22 http://ftpmaster.internal/ubuntu xenial/main s390x intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:23 http://ftpmaster.internal/ubuntu xenial/main s390x po-debconf all 1.0.19 [234 kB] Get:24 http://ftpmaster.internal/ubuntu xenial/main s390x libarchive-zip-perl all 1.56-2 [84.1 kB] Get:25 http://ftpmaster.internal/ubuntu xenial/main s390x libfile-stripnondeterminism-perl all 0.015-1 [10.3 kB] Get:26 http://ftpmaster.internal/ubuntu xenial/main s390x libtimedate-perl all 2.3000-2 [37.5 kB] Get:27 http://ftpmaster.internal/ubuntu xenial/main s390x dh-strip-nondeterminism all 0.015-1 [4864 B] Get:28 http://ftpmaster.internal/ubuntu xenial/main s390x debhelper all 9.20160115ubuntu2 [740 kB] Get:29 http://ftpmaster.internal/ubuntu xenial/main s390x libtool all 2.4.2-1.11 [180 kB] Get:30 http://ftpmaster.internal/ubuntu xenial/main s390x dh-autoreconf all 10 [15.3 kB] Get:31 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost1.58-dev s390x 1.58.0+dfsg-4.1ubuntu3 [6237 kB] Get:32 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost-regex1.58.0 s390x 1.58.0+dfsg-4.1ubuntu3 [239 kB] Get:33 http://ftpmaster.internal/ubuntu xenial-proposed/universe s390x libboost-graph1.58.0 s390x 1.58.0+dfsg-4.1ubuntu3 [88.9 kB] Get:34 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost-serialization1.58.0 s390x 1.58.0+dfsg-4.1ubuntu3 [110 kB] Get:35 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost-serialization1.58-dev s390x 1.58.0+dfsg-4.1ubuntu3 [131 kB] Get:36 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost-test1.58.0 s390x 1.58.0+dfsg-4.1ubuntu3 [168 kB] Get:37 http://ftpmaster.internal/ubuntu xenial-proposed/main s390x libboost-test1.58-dev s390x 1.58.0+dfsg-4.1ubuntu3 [204 kB] Get:38 http://ftpmaster.internal/ubuntu xenial-proposed/universe s390x libboost-graph1.58-dev s390x 1.58.0+dfsg-4.1ubuntu3 [95.2 kB] Get:39 http://ftpmaster.internal/ubuntu xenial/universe s390x libboost-graph-dev s390x 1.58.0.1 [2964 B] Get:40 http://ftpmaster.internal/ubuntu xenial/main s390x libgtest-dev s390x 1.7.0-4ubuntu1 [197 kB] Get:41 http://ftpmaster.internal/ubuntu xenial/main s390x libhtml-tagset-perl all 3.20-2 [13.5 kB] Get:42 http://ftpmaster.internal/ubuntu xenial/main s390x liburi-perl all 1.71-1 [76.9 kB] Get:43 http://ftpmaster.internal/ubuntu xenial/main s390x libhtml-parser-perl s390x 3.72-1 [85.5 kB] Get:44 http://ftpmaster.internal/ubuntu xenial/main s390x libltdl7 s390x 2.4.2-1.11 [34.4 kB] Get:45 http://ftpmaster.internal/ubuntu xenial/main s390x libltdl-dev s390x 2.4.2-1.11 [158 kB] Get:46 http://ftpmaster.internal/ubuntu xenial/main s390x libsparsehash-dev all 2.0.2-1 [72.4 kB] Get:47 http://ftpmaster.internal/ubuntu xenial/main s390x libsqlite3-dev s390x 3.10.2-1 [487 kB] Get:48 http://ftpmaster.internal/ubuntu xenial/universe s390x libtext-markdown-perl all 1.000031-2 [29.7 kB] Get:49 http://ftpmaster.internal/ubuntu xenial/universe s390x libtext-multimarkdown-perl all 1.000035-1 [24.8 kB] Get:50 http://ftpmaster.internal/ubuntu xenial-proposed/universe s390x openmpi-common all 1.10.2-3ubuntu1 [130 kB] Get:51 http://ftpmaster.internal/ubuntu xenial/universe s390x libhwloc5 s390x 1.11.2-2 [88.6 kB] Get:52 http://ftpmaster.internal/ubuntu xenial/universe s390x libhwloc-dev s390x 1.11.2-2 [150 kB] Get:53 http://ftpmaster.internal/ubuntu xenial/main s390x libibverbs1 s390x 1.1.8-1.1ubuntu1 [23.9 kB] Get:54 http://ftpmaster.internal/ubuntu xenial/main s390x libibverbs-dev s390x 1.1.8-1.1ubuntu1 [77.4 kB] Get:55 http://ftpmaster.internal/ubuntu xenial-proposed/universe s390x libopenmpi1.10 s390x 1.10.2-3ubuntu1 [1893 kB] Get:56 http://ftpmaster.internal/ubuntu xenial-proposed/universe s390x libopenmpi-dev s390x 1.10.2-3ubuntu1 [536 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 27.3 MB in 29s (914 kB/s) Selecting previously 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Unpacking libpipeline1:s390x (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.7.5-1_s390x.deb ... Unpacking man-db (2.7.5-1) ... Selecting previously unselected package libmagic1:s390x. Preparing to unpack .../libmagic1_1%3a5.25-2ubuntu1_s390x.deb ... Unpacking libmagic1:s390x (1:5.25-2ubuntu1) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.25-2ubuntu1_s390x.deb ... Unpacking file (1:5.25-2ubuntu1) ... Selecting previously unselected package libasprintf0v5:s390x. Preparing to unpack .../libasprintf0v5_0.19.7-2ubuntu2_s390x.deb ... Unpacking libasprintf0v5:s390x (0.19.7-2ubuntu2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.19.7-2ubuntu2_s390x.deb ... Unpacking gettext-base (0.19.7-2ubuntu2) ... Selecting previously unselected package libglib2.0-0:s390x. Preparing to unpack .../libglib2.0-0_2.47.5-1_s390x.deb ... 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Selecting previously unselected package libopenmpi-dev. Preparing to unpack .../libopenmpi-dev_1.10.2-3ubuntu1_s390x.deb ... Unpacking libopenmpi-dev (1.10.2-3ubuntu1) ... Selecting previously unselected package sbuild-build-depends-abyss-dummy. Preparing to unpack .../sbuild-build-depends-abyss-dummy.deb ... Unpacking sbuild-build-depends-abyss-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... Setting up groff-base (1.22.3-7) ... Setting up bsdmainutils (9.0.6ubuntu2) ... 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 libpipeline1:s390x (1.4.1-2) ... Setting up man-db (2.7.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libmagic1:s390x (1:5.25-2ubuntu1) ... Setting up file (1:5.25-2ubuntu1) ... Setting up libasprintf0v5:s390x (0.19.7-2ubuntu2) ... Setting up gettext-base (0.19.7-2ubuntu2) ... Setting up libglib2.0-0:s390x (2.47.5-1) ... No schema files found: doing nothing. Setting up libicu55:s390x (55.1-7) ... Setting up libxml2:s390x (2.9.3+dfsg1-1) ... Setting up libsigsegv2:s390x (2.10-4) ... Setting up m4 (1.4.17-5) ... Setting up autoconf (2.69-9) ... Setting up autotools-dev (20150820.1) ... Setting up automake (1:1.15-1ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up autopoint (0.19.7-2ubuntu2) ... Setting up libcroco3:s390x (0.6.11-1) ... Setting up libunistring0:s390x (0.9.3-5.2ubuntu1) ... Setting up gettext (0.19.7-2ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up po-debconf (1.0.19) ... Setting up libarchive-zip-perl (1.56-2) ... Setting up libfile-stripnondeterminism-perl (0.015-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libtool (2.4.2-1.11) ... Setting up libboost1.58-dev:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-regex1.58.0:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-graph1.58.0:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-serialization1.58.0:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-serialization1.58-dev:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-test1.58.0:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-test1.58-dev:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-graph1.58-dev:s390x (1.58.0+dfsg-4.1ubuntu3) ... Setting up libboost-graph-dev:s390x (1.58.0.1) ... Setting up libgtest-dev:s390x (1.7.0-4ubuntu1) ... Setting up libhtml-tagset-perl (3.20-2) ... Setting up liburi-perl (1.71-1) ... Setting up libhtml-parser-perl (3.72-1) ... Setting up libltdl7:s390x (2.4.2-1.11) ... Setting up libltdl-dev:s390x (2.4.2-1.11) ... Setting up libsparsehash-dev (2.0.2-1) ... Setting up libsqlite3-dev:s390x (3.10.2-1) ... Setting up libtext-markdown-perl (1.000031-2) ... Setting up libtext-multimarkdown-perl (1.000035-1) ... Setting up openmpi-common (1.10.2-3ubuntu1) ... Setting up libhwloc5:s390x (1.11.2-2) ... Setting up libhwloc-dev:s390x (1.11.2-2) ... Setting up libibverbs1 (1.1.8-1.1ubuntu1) ... Setting up libibverbs-dev (1.1.8-1.1ubuntu1) ... Setting up libopenmpi1.10 (1.10.2-3ubuntu1) ... Setting up libopenmpi-dev (1.10.2-3ubuntu1) ... update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode Setting up debhelper (9.20160115ubuntu2) ... Setting up dh-autoreconf (10) ... Setting up sbuild-build-depends-abyss-dummy (0.invalid.0) ... Setting up dh-strip-nondeterminism (0.015-1) ... Processing triggers for libc-bin (2.21-0ubuntu5) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.3.0-6-generic s390x (s390x) Toolchain package versions: binutils_2.26-3ubuntu1 dpkg-dev_1.18.4ubuntu1 g++-5_5.3.1-8ubuntu2 gcc-5_5.3.1-8ubuntu2 libc6-dev_2.21-0ubuntu5 libstdc++-5-dev_5.3.1-8ubuntu2 libstdc++6_5.3.1-8ubuntu2 linux-libc-dev_4.4.0-4.19 Package versions: adduser_3.113+nmu3ubuntu4 advancecomp_1.20-1 apt_1.1.10 apt-transport-https_1.1.10 autoconf_2.69-9 automake_1:1.15-1ubuntu1 autopoint_0.19.7-2ubuntu2 autotools-dev_20150820.1 base-files_9.4ubuntu3 base-passwd_3.5.39 bash_4.3-14ubuntu1 binutils_2.26-3ubuntu1 bsdmainutils_9.0.6ubuntu2 bsdutils_1:2.27.1-1ubuntu4 build-essential_12.1ubuntu2 bzip2_1.0.6-8 ca-certificates_20160104 coreutils_8.23-4ubuntu2 cpp_4:5.2.1-16ubuntu2 cpp-5_5.3.1-8ubuntu2 dash_0.5.7-4ubuntu2 debconf_1.5.58ubuntu1 debhelper_9.20160115ubuntu2 debianutils_4.7 dh-autoreconf_10 dh-strip-nondeterminism_0.015-1 diffutils_1:3.3-3 dmsetup_2:1.02.110-1ubuntu4 dpkg_1.18.4ubuntu1 dpkg-dev_1.18.4ubuntu1 e2fslibs_1.42.13-1ubuntu1 e2fsprogs_1.42.13-1ubuntu1 fakeroot_1.20.2-1ubuntu1 file_1:5.25-2ubuntu1 findutils_4.6.0-2 g++_4:5.2.1-16ubuntu2 g++-5_5.3.1-8ubuntu2 gcc_4:5.2.1-16ubuntu2 gcc-5_5.3.1-8ubuntu2 gcc-5-base_5.3.1-8ubuntu2 gettext_0.19.7-2ubuntu2 gettext-base_0.19.7-2ubuntu2 gnupg_1.4.20-1ubuntu1 gpgv_1.4.20-1ubuntu1 grep_2.22-1 groff-base_1.22.3-7 gzip_1.6-4ubuntu1 hostname_3.16ubuntu2 init_1.28ubuntu1 init-system-helpers_1.28ubuntu1 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3 libapparmor1_2.10-0ubuntu12 libapt-pkg4.16_1.0.10.2ubuntu1 libapt-pkg5.0_1.1.10 libarchive-zip-perl_1.56-2 libasn1-8-heimdal_1.7~git20150920+dfsg-4ubuntu1 libasprintf0v5_0.19.7-2ubuntu2 libatomic1_5.3.1-8ubuntu2 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1ubuntu2 libaudit1_1:2.4.5-1ubuntu2 libblkid1_2.27.1-1ubuntu4 libboost-graph-dev_1.58.0.1 libboost-graph1.58-dev_1.58.0+dfsg-4.1ubuntu3 libboost-graph1.58.0_1.58.0+dfsg-4.1ubuntu3 libboost-regex1.58.0_1.58.0+dfsg-4.1ubuntu3 libboost-serialization1.58-dev_1.58.0+dfsg-4.1ubuntu3 libboost-serialization1.58.0_1.58.0+dfsg-4.1ubuntu3 libboost-test1.58-dev_1.58.0+dfsg-4.1ubuntu3 libboost-test1.58.0_1.58.0+dfsg-4.1ubuntu3 libboost1.58-dev_1.58.0+dfsg-4.1ubuntu3 libbz2-1.0_1.0.6-8 libc-bin_2.21-0ubuntu5 libc-dev-bin_2.21-0ubuntu5 libc6_2.21-0ubuntu5 libc6-dev_2.21-0ubuntu5 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.3.1-8ubuntu2 libcomerr2_1.42.13-1ubuntu1 libcroco3_0.6.11-1 libcryptsetup4_2:1.6.6-5ubuntu2 libcurl3-gnutls_7.47.0-1ubuntu1 libdb5.3_5.3.28-11 libdebconfclient0_0.198ubuntu1 libdevmapper1.02.1_2:1.02.110-1ubuntu4 libdpkg-perl_1.18.4ubuntu1 libfakeroot_1.20.2-1ubuntu1 libfdisk1_2.27.1-1ubuntu4 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.015-1 libgcc-5-dev_5.3.1-8ubuntu2 libgcc1_1:5.3.1-8ubuntu2 libgcrypt20_1.6.4-5 libgdbm3_1.8.3-13.1 libglib2.0-0_2.47.5-1 libgmp10_2:6.1.0+dfsg-2 libgnutls-deb0-28_3.3.20-1ubuntu1 libgomp1_5.3.1-8ubuntu2 libgpg-error0_1.21-1 libgssapi-krb5-2_1.13.2+dfsg-4 libgssapi3-heimdal_1.7~git20150920+dfsg-4ubuntu1 libgtest-dev_1.7.0-4ubuntu1 libhcrypto4-heimdal_1.7~git20150920+dfsg-4ubuntu1 libheimbase1-heimdal_1.7~git20150920+dfsg-4ubuntu1 libheimntlm0-heimdal_1.7~git20150920+dfsg-4ubuntu1 libhogweed4_3.2-1 libhtml-parser-perl_3.72-1 libhtml-tagset-perl_3.20-2 libhwloc-dev_1.11.2-2 libhwloc5_1.11.2-2 libhx509-5-heimdal_1.7~git20150920+dfsg-4ubuntu1 libibverbs-dev_1.1.8-1.1ubuntu1 libibverbs1_1.1.8-1.1ubuntu1 libicu55_55.1-7 libidn11_1.32-3ubuntu1 libisl15_0.16.1-1 libitm1_5.3.1-8ubuntu2 libk5crypto3_1.13.2+dfsg-4 libkeyutils1_1.5.9-8ubuntu1 libkmod2_21-1ubuntu1 libkrb5-26-heimdal_1.7~git20150920+dfsg-4ubuntu1 libkrb5-3_1.13.2+dfsg-4 libkrb5support0_1.13.2+dfsg-4 libldap-2.4-2_2.4.42+dfsg-2ubuntu1 liblockfile-bin_1.09-6ubuntu1 liblockfile1_1.09-6ubuntu1 libltdl-dev_2.4.2-1.11 libltdl7_2.4.2-1.11 liblzma5_5.1.1alpha+20120614-2ubuntu2 libmagic1_1:5.25-2ubuntu1 libmount1_2.27.1-1ubuntu4 libmpc3_1.0.3-1 libmpfr4_3.1.3-2 libncurses5_6.0+20151024-2ubuntu2 libncursesw5_6.0+20151024-2ubuntu2 libnettle6_3.2-1 libopenmpi-dev_1.10.2-3ubuntu1 libopenmpi1.10_1.10.2-3ubuntu1 libp11-kit0_0.23.2-3 libpam-modules_1.1.8-3.1ubuntu3 libpam-modules-bin_1.1.8-3.1ubuntu3 libpam-runtime_1.1.8-3.1ubuntu3 libpam0g_1.1.8-3.1ubuntu3 libpcre3_2:8.38-1ubuntu1 libperl5.22_5.22.1-5 libpipeline1_1.4.1-2 libpng12-0_1.2.54-1ubuntu1 libprocps3_1:3.3.9-1ubuntu8 libprocps4_2:3.3.10-4ubuntu2 libreadline6_6.3-8ubuntu2 libroken18-heimdal_1.7~git20150920+dfsg-4ubuntu1 librtmp1_2.4+20151223.gitfa8646d-1 libsasl2-2_2.1.26.dfsg1-14 libsasl2-modules-db_2.1.26.dfsg1-14 libseccomp2_2.2.3-2ubuntu3 libselinux1_2.4-3build1 libsemanage-common_2.4-3build1 libsemanage1_2.4-3build1 libsepol1_2.4-2 libsigsegv2_2.10-4 libslang2_2.3.0-2ubuntu1 libsmartcols1_2.27.1-1ubuntu4 libsparsehash-dev_2.0.2-1 libsqlite3-0_3.10.2-1 libsqlite3-dev_3.10.2-1 libss2_1.42.13-1ubuntu1 libssl1.0.0_1.0.2f-2ubuntu1 libstdc++-5-dev_5.3.1-8ubuntu2 libstdc++6_5.3.1-8ubuntu2 libsystemd0_228-5ubuntu3 libtasn1-6_4.7-3 libtext-markdown-perl_1.000031-2 libtext-multimarkdown-perl_1.000035-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20151024-2ubuntu2 libtool_2.4.2-1.11 libudev1_228-5ubuntu3 libunistring0_0.9.3-5.2ubuntu1 liburi-perl_1.71-1 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.27.1-1ubuntu4 libwind0-heimdal_1.7~git20150920+dfsg-4ubuntu1 libxml2_2.9.3+dfsg1-1 linux-libc-dev_4.4.0-4.19 lockfile-progs_0.1.17 login_1:4.2-3.1ubuntu2 lsb-base_9.20160110 m4_1.4.17-5 make_4.1-5 man-db_2.7.5-1 mawk_1.3.3-17ubuntu2 mount_2.27.1-1ubuntu4 multiarch-support_2.21-0ubuntu5 ncurses-base_6.0+20151024-2ubuntu2 ncurses-bin_6.0+20151024-2ubuntu2 openmpi-common_1.10.2-3ubuntu1 openssl_1.0.2f-2ubuntu1 optipng_0.7.5-1 passwd_1:4.2-3.1ubuntu2 patch_2.7.5-1 perl_5.22.1-5 perl-base_5.22.1-5 perl-modules-5.22_5.22.1-5 pkg-create-dbgsym_0.70 pkgbinarymangler_129 po-debconf_1.0.19 policyrcd-script-zg2_0.1-2 procps_2:3.3.10-4ubuntu2 readline-common_6.3-8ubuntu2 sbuild-build-depends-abyss-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 systemd_228-5ubuntu3 systemd-sysv_228-5ubuntu3 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.3ubuntu2 tar_1.28-2.1 tzdata_2016a-1 ubuntu-keyring_2012.05.19 udev_228-5ubuntu3 util-linux_2.27.1-1ubuntu4 xz-utils_5.1.1alpha+20120614-2ubuntu2 zlib1g_1:1.2.8.dfsg-2ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sun Feb 7 13:02:39 2016 UTC using RSA key ID 778FA6F5 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./abyss_1.9.0-1build1.dsc dpkg-source: info: extracting abyss in abyss-1.9.0 dpkg-source: info: unpacking abyss_1.9.0.orig.tar.gz dpkg-source: info: unpacking abyss_1.9.0-1build1.debian.tar.xz dpkg-source: info: applying abyss-pe.patch dpkg-source: info: applying privacy-breach.patch dpkg-source: info: applying abyss-32-bit.patch dpkg-source: info: applying fix_bash_script.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C LC_ALL=POSIX LOGNAME=buildd MAIL=/var/mail/buildd OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games PWD=/<> SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /<> su buildd -s /bin/sh -c cd '/<>' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ----------------- dpkg-buildpackage: source package abyss dpkg-buildpackage: source version 1.9.0-1build1 dpkg-buildpackage: source distribution xenial dpkg-source --before-build abyss-1.9.0 dpkg-buildpackage: host architecture s390x fakeroot debian/rules clean dh clean --with autoreconf dh_testdir dh_auto_clean dh_autoreconf_clean dh_clean debian/rules build-arch dh build-arch --with autoreconf dh_testdir -a dh_update_autotools_config -a dh_autoreconf -a Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\${ <-- HERE ([^ \t=:+{}]+)}/ at /usr/bin/automake line 3936. configure.ac:11: installing './compile' configure.ac:141: installing './config.guess' configure.ac:141: installing './config.sub' configure.ac:5: installing './install-sh' configure.ac:5: installing './missing' ABYSS/Makefile.am: installing './depcomp' parallel-tests: installing './test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- --with-mpi=/usr/lib/openmpi ./configure --build=s390x-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/s390x-linux-gnu --libexecdir=\${prefix}/lib/s390x-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --with-mpi=/usr/lib/openmpi configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gawk... (cached) mawk checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for ranlib... ranlib checking for ghc... no checking for ghc-pkg... no ./configure: line 5327: : command not found checking for pandoc... no checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdint.h... 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(cached) yes checking whether byte ordering is bigendian... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for ptrdiff_t... yes checking for mode_t... yes checking for pid_t... yes checking for size_t... yes checking for ssize_t... yes checking for int64_t... yes checking for uint8_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for std::hash... no checking for std::tr1::hash... yes checking for dup2... yes checking for gethostname... yes checking for getopt_long... yes checking for getpagesize... yes checking for memset... yes checking for strdup... yes checking for strerror... yes checking for strtoul... yes checking vfork.h usability... no checking vfork.h presence... no checking for vfork.h... no checking for fork... yes checking for vfork... yes checking for working fork... yes checking for working vfork... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for working memcmp... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking whether HOST_NAME_MAX is declared... yes checking build system type... s390x-ibm-linux-gnu checking host system type... s390x-ibm-linux-gnu checking if compiler needs -Werror to reject unknown flags... no checking for the pthreads library -lpthreads... no checking whether pthreads work without any flags... no checking whether pthreads work with -Kthread... no checking whether pthreads work with -kthread... no checking for the pthreads library -llthread... no checking whether pthreads work with -pthread... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking mpi.h usability... yes checking mpi.h presence... yes checking for mpi.h... yes checking for MPI_Init in -lmpi... yes checking for sqrt in -lm... yes checking for pow... yes checking for sqrt... yes checking for ceilf... yes checking for dlsym in -ldl... yes checking how to run the C++ preprocessor... g++ -E checking functional usability... yes checking functional presence... yes checking for functional... yes checking tr1/functional usability... yes checking tr1/functional presence... yes checking for tr1/functional... yes checking boost/functional/hash.hpp usability... yes checking boost/functional/hash.hpp presence... yes checking for boost/functional/hash.hpp... yes checking boost/property_map/property_map.hpp usability... yes checking boost/property_map/property_map.hpp presence... yes checking for boost/property_map/property_map.hpp... yes checking google/sparse_hash_map usability... yes checking google/sparse_hash_map presence... yes checking for google/sparse_hash_map... yes checking unordered_map usability... no checking unordered_map presence... no checking for unordered_map... no checking tr1/unordered_map usability... yes checking tr1/unordered_map presence... yes checking for tr1/unordered_map... yes checking unordered_set usability... no checking unordered_set presence... no checking for unordered_set... no checking tr1/unordered_set usability... yes checking tr1/unordered_set presence... yes checking for tr1/unordered_set... yes checking boost/unordered_set.hpp usability... yes checking boost/unordered_set.hpp presence... yes checking for boost/unordered_set.hpp... yes checking sqlite3.h usability... yes checking sqlite3.h presence... yes checking for sqlite3.h... yes checking for main in -lsqlite3... yes checking for g++ option to support OpenMP... -fopenmp ./configure: line 8392: test: too many arguments checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating ABYSS/Makefile config.status: creating Align/Makefile config.status: creating Assembly/Makefile config.status: creating Common/Makefile config.status: creating DataLayer/Makefile config.status: creating FMIndex/Makefile config.status: creating Graph/Makefile config.status: creating Parallel/Makefile config.status: creating bin/Makefile config.status: creating doc/Makefile config.status: creating dialign/Makefile config.status: creating kmerprint/Makefile config.status: creating AdjList/Makefile config.status: creating Konnector/Makefile config.status: creating DAssembler/Makefile config.status: creating DistanceEst/Makefile config.status: creating Layout/Makefile config.status: creating Map/Makefile config.status: creating Misc/Makefile config.status: creating Overlap/Makefile config.status: creating PopBubbles/Makefile config.status: creating Scaffold/Makefile config.status: creating SimpleGraph/Makefile config.status: creating MergePaths/Makefile config.status: creating KAligner/Makefile config.status: creating PairedDBG/Makefile config.status: creating ParseAligns/Makefile config.status: creating PathOverlap/Makefile config.status: creating Consensus/Makefile config.status: creating FilterGraph/Makefile config.status: creating GapFiller/Makefile config.status: creating Sealer/Makefile config.status: creating lib/gtest-1.7.0/Makefile config.status: creating Unittest/Makefile config.status: creating LogKmerCount/Makefile config.status: creating Bloom/Makefile config.status: creating DataBase/Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build --parallel make -j4 make[2]: Entering directory '/<>' make all-recursive make[3]: Entering directory '/<>' Making all in bin make[4]: Entering directory '/<>/bin' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/bin' Making all in doc make[4]: Entering directory '/<>/doc' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/doc' Making all in Common make[4]: Entering directory '/<>/Common' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-ContigID.o `test -f 'ContigID.cpp' || echo './'`ContigID.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Fcontrol.o `test -f 'Fcontrol.cpp' || echo './'`Fcontrol.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Histogram.o `test -f 'Histogram.cpp' || echo './'`Histogram.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Kmer.o `test -f 'Kmer.cpp' || echo './'`Kmer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Log.o `test -f 'Log.cpp' || echo './'`Log.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Options.o `test -f 'Options.cpp' || echo './'`Options.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Sequence.o `test -f 'Sequence.cpp' || echo './'`Sequence.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-SignalHandler.o `test -f 'SignalHandler.cpp' || echo './'`SignalHandler.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Timer.o `test -f 'Timer.cpp' || echo './'`Timer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-Uncompress.o `test -f 'Uncompress.cpp' || echo './'`Uncompress.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libcommon_a-city.o `test -f 'city.cc' || echo './'`city.cc rm -f libcommon.a ar cru libcommon.a libcommon_a-ContigID.o libcommon_a-Fcontrol.o libcommon_a-Histogram.o libcommon_a-Kmer.o libcommon_a-Log.o libcommon_a-Options.o libcommon_a-Sequence.o libcommon_a-SignalHandler.o libcommon_a-Timer.o libcommon_a-Uncompress.o libcommon_a-city.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcommon.a make[4]: Leaving directory '/<>/Common' Making all in Graph make[4]: Entering directory '/<>/Graph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_gc-gc.o `test -f 'gc.cc' || echo './'`gc.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_todot-todot.o `test -f 'todot.cc' || echo './'`todot.cc g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-gc abyss_gc-gc.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L. -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-todot abyss_todot-todot.o ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Graph' Making all in DataLayer make[4]: Entering directory '/<>/DataLayer' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libdatalayer_a-FastaReader.o `test -f 'FastaReader.cpp' || echo './'`FastaReader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libdatalayer_a-FastaWriter.o `test -f 'FastaWriter.cpp' || echo './'`FastaWriter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_fac-fac.o `test -f 'fac.cc' || echo './'`fac.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_tofastq-abyss-tofastq.o `test -f 'abyss-tofastq.cc' || echo './'`abyss-tofastq.cc rm -f libdatalayer.a ar cru libdatalayer.a libdatalayer_a-FastaReader.o libdatalayer_a-FastaWriter.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdatalayer.a g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-tofastq abyss_tofastq-abyss-tofastq.o libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-fac abyss_fac-fac.o libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DataLayer' Making all in DataBase make[4]: Entering directory '/<>/DataBase' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libdb_a-DB.o `test -f 'DB.cc' || echo './'`DB.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_db_csv-DB.o `test -f 'DB.cc' || echo './'`DB.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_db_csv-db-csv.o `test -f 'db-csv.cc' || echo './'`db-csv.cc g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-db-csv abyss_db_csv-DB.o abyss_db_csv-db-csv.o -lsqlite3 -ldl -lm rm -f libdb.a ar cru libdb.a libdb_a-DB.o ../Common/libcommon.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdb.a make[4]: Leaving directory '/<>/DataBase' Making all in FMIndex make[4]: Entering directory '/<>/FMIndex' g++ -DHAVE_CONFIG_H -I. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libfmindex_a-bit_array.o `test -f 'bit_array.cc' || echo './'`bit_array.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_count-count.o `test -f 'count.cc' || echo './'`count.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_dawg-abyss-dawg.o `test -f 'abyss-dawg.cc' || echo './'`abyss-dawg.cc In file included from bit_array.cc:21:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ rm -f libfmindex.a ar cru libfmindex.a libfmindex_a-bit_array.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libfmindex.a In file included from abyss-dawg.cc:1:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ In file included from count.cc:1:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-dawg abyss_dawg-abyss-dawg.o libfmindex.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-count abyss_count-count.o libfmindex.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/FMIndex' Making all in Assembly make[4]: Entering directory '/<>/Assembly' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libassembly_a-AssemblyAlgorithms.o `test -f 'AssemblyAlgorithms.cc' || echo './'`AssemblyAlgorithms.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libassembly_a-Options.o `test -f 'Options.cc' || echo './'`Options.cc rm -f libassembly.a ar cru libassembly.a libassembly_a-AssemblyAlgorithms.o libassembly_a-Options.o ../Common/libcommon.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libassembly.a make[4]: Leaving directory '/<>/Assembly' Making all in dialign make[4]: Entering directory '/<>/dialign' gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o alig.o alig.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o assemble.o assemble.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o diag.o diag.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o io.o io.c assemble.c:40:20: warning: inline function 'align_diag' declared but never defined extern inline char align_diag(struct alignment *algn, struct scr_matrix *smatrix, struct diag* dg); ^ assemble.c:37:32: warning: inline function 'find_eqc' declared but never defined extern inline struct algn_pos *find_eqc(struct algn_pos **ap, int seqnum, int pos); ^ assemble.c:25:39: warning: inline function 'find_diags_guided' declared but never defined extern inline struct simple_diag_col* find_diags_guided(struct scr_matrix *smatrix, ^ assemble.c:15:20: warning: inline function 'calc_ov_weight' declared but never defined extern inline void calc_ov_weight(struct diag* dg, struct diag_col *dcol, struct scr_matrix* smatrix, ^ assemble.c:13:20: warning: inline function 'calc_weight' declared but never defined extern inline void calc_weight(struct diag* dg, struct scr_matrix* smatrix, ^ diag.c:1456:3: warning: 'real_calc_weight' is static but used in inline function 'find_diags_dyn' which is not static real_calc_weight(dg, smatrix, pdist,1,tmp_dist,algn); ^ alig.c:15:20: warning: inline function 'calc_ov_weight' declared but never defined extern inline void calc_ov_weight(struct diag* dg, struct diag_col *dcol, struct scr_matrix* smatrix, ^ alig.c:13:20: warning: inline function 'calc_weight' declared but never defined extern inline void calc_weight(struct diag* dg, struct scr_matrix* smatrix, ^ io.c: In function 'read_scr_matrix': io.c:270:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf( fp, "%i", &is); ^ io.c:282:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(fp, "%s\n", rline); ^ io.c: In function 'read_diag_prob_dist': io.c:371:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf( fp, "%li %li %Le\n", &ti,&tscr,&weight ); ^ gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o orf.o orf.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o parameters.o parameters.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o prob.o prob.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o translate.o translate.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o museq.o museq.c museq.c: In function 'main': museq.c:168:2: warning: implicit declaration of function 'free_diag' [-Wimplicit-function-declaration] free_diag(adcol.diags[i]); ^ museq.c:278:27: warning: implicit declaration of function 'free_alignment' [-Wimplicit-function-declaration] if(! para->FAST_MODE) free_alignment(algn); ^ rm -f libdialign.a ar cru libdialign.a alig.o assemble.o diag.o io.o orf.o parameters.o prob.o translate.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdialign.a gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o dialign museq.o libdialign.a -ldl -lm make[4]: Leaving directory '/<>/dialign' Making all in Align make[4]: Entering directory '/<>/Align' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libalign_a-alignGlobal.o `test -f 'alignGlobal.cc' || echo './'`alignGlobal.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libalign_a-dialign.o `test -f 'dialign.cpp' || echo './'`dialign.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libalign_a-dna_diag_prob.o `test -f 'dna_diag_prob.cc' || echo './'`dna_diag_prob.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o libalign_a-smith_waterman.o `test -f 'smith_waterman.cpp' || echo './'`smith_waterman.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_align-align.o `test -f 'align.cc' || echo './'`align.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_mergepairs-mergepairs.o `test -f 'mergepairs.cc' || echo './'`mergepairs.cc rm -f libalign.a ar cru libalign.a libalign_a-alignGlobal.o libalign_a-dialign.o libalign_a-dna_diag_prob.o libalign_a-smith_waterman.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libalign.a g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-align abyss_align-align.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-mergepairs abyss_mergepairs-mergepairs.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Align' Making all in ABYSS make[4]: Entering directory '/<>/ABYSS' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS-abyss.o `test -f 'abyss.cc' || echo './'`abyss.cc g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o ABYSS ABYSS-abyss.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/ABYSS' Making all in Parallel make[4]: Entering directory '/<>/Parallel' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS_P-parallelAbyss.o `test -f 'parallelAbyss.cpp' || echo './'`parallelAbyss.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS_P-CommLayer.o `test -f 'CommLayer.cpp' || echo './'`CommLayer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS_P-NetworkSequenceCollection.o `test -f 'NetworkSequenceCollection.cpp' || echo './'`NetworkSequenceCollection.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS_P-MessageBuffer.o `test -f 'MessageBuffer.cpp' || echo './'`MessageBuffer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ABYSS_P-Messages.o `test -f 'Messages.cpp' || echo './'`Messages.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg_mpi-parallelAbyss.o `test -f 'parallelAbyss.cpp' || echo './'`parallelAbyss.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg_mpi-CommLayer.o `test -f 'CommLayer.cpp' || echo './'`CommLayer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg_mpi-NetworkSequenceCollection.o `test -f 'NetworkSequenceCollection.cpp' || echo './'`NetworkSequenceCollection.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from SequenceCollection.h:5, from Messages.h:4, from CommLayer.h:4, from CommLayer.cpp:2: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg_mpi-MessageBuffer.o `test -f 'MessageBuffer.cpp' || echo './'`MessageBuffer.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from SequenceCollection.h:5, from Messages.h:4, from CommLayer.h:4, from NetworkSequenceCollection.h:4, from parallelAbyss.cpp:2: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg_mpi-Messages.o `test -f 'Messages.cpp' || echo './'`Messages.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from SequenceCollection.h:5, from Messages.h:4, from CommLayer.h:4, from MessageBuffer.h:6, from MessageBuffer.cpp:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from SequenceCollection.h:5, from Messages.h:4, from Messages.cpp:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o ABYSS-P ABYSS_P-parallelAbyss.o ABYSS_P-CommLayer.o ABYSS_P-NetworkSequenceCollection.o ABYSS_P-MessageBuffer.o ABYSS_P-Messages.o ../Assembly/libassembly.a ../Common/libcommon.a ../DataLayer/libdatalayer.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -lmpi -ldl -lm In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from SequenceCollection.h:5, from Messages.h:4, from CommLayer.h:4, from NetworkSequenceCollection.h:4, from NetworkSequenceCollection.cpp:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-paired-dbg-mpi abyss_paired_dbg_mpi-parallelAbyss.o abyss_paired_dbg_mpi-CommLayer.o abyss_paired_dbg_mpi-NetworkSequenceCollection.o abyss_paired_dbg_mpi-MessageBuffer.o abyss_paired_dbg_mpi-Messages.o ../Assembly/libassembly.a ../Common/libcommon.a ../DataLayer/libdatalayer.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -lmpi -ldl -lm make[4]: Leaving directory '/<>/Parallel' Making all in Bloom make[4]: Entering directory '/<>/Bloom' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_bloom-bloom.o `test -f 'bloom.cc' || echo './'`bloom.cc In file included from bloom.cc:8:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-bloom abyss_bloom-bloom.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Bloom' Making all in Konnector make[4]: Entering directory '/<>/Konnector' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o konnector-konnector.o `test -f 'konnector.cc' || echo './'`konnector.cc In file included from ../Bloom/BloomFilter.h:11:0, from ../Bloom/CascadingBloomFilter.h:9, from konnector.h:5, from konnector.cc:8: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o konnector konnector-konnector.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Konnector' Making all in Consensus make[4]: Entering directory '/<>/Consensus' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Consensus-Consensus.o `test -f 'Consensus.cpp' || echo './'`Consensus.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o Consensus Consensus-Consensus.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Consensus' Making all in DAssembler make[4]: Entering directory '/<>/DAssembler' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DAssembler-DAssembler.o `test -f 'DAssembler.cpp' || echo './'`DAssembler.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DAssembler-RotatedRead.o `test -f 'RotatedRead.cpp' || echo './'`RotatedRead.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o DAssembler DAssembler-DAssembler.o DAssembler-RotatedRead.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DAssembler' Making all in DistanceEst make[4]: Entering directory '/<>/DistanceEst' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DistanceEst-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DistanceEst-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DistanceEst_ssq-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DistanceEst_ssq-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o DistanceEst DistanceEst-DistanceEst.o DistanceEst-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o DistanceEst-ssq DistanceEst_ssq-DistanceEst.o DistanceEst_ssq-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DistanceEst' Making all in KAligner make[4]: Entering directory '/<>/KAligner' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o KAligner-KAligner.o `test -f 'KAligner.cpp' || echo './'`KAligner.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o KAligner-Aligner.o `test -f 'Aligner.cpp' || echo './'`Aligner.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o KAligner KAligner-KAligner.o KAligner-Aligner.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -lpthread -ldl -lm make[4]: Leaving directory '/<>/KAligner' Making all in Layout make[4]: Entering directory '/<>/Layout' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_layout-layout.o `test -f 'layout.cc' || echo './'`layout.cc g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-layout abyss_layout-layout.o ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Layout' Making all in LogKmerCount make[4]: Entering directory '/<>/LogKmerCount' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o logcounter-logcounter.o `test -f 'logcounter.cc' || echo './'`logcounter.cc g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o logcounter logcounter-logcounter.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/LogKmerCount' Making all in Map make[4]: Entering directory '/<>/Map' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_index-index.o `test -f 'index.cc' || echo './'`index.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_map-map.o `test -f 'map.cc' || echo './'`map.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -D SAM_SEQ_QUAL=1 -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_map_ssq-map.o `test -f 'map.cc' || echo './'`map.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_overlap-overlap.o `test -f 'overlap.cc' || echo './'`overlap.cc In file included from index.cc:2:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-index abyss_index-index.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm In file included from map.cc:1:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-map abyss_map-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm In file included from overlap.cc:9:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-overlap abyss_overlap-overlap.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm In file included from map.cc:1:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-map-ssq abyss_map_ssq-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm make[4]: Leaving directory '/<>/Map' Making all in MergePaths make[4]: Entering directory '/<>/MergePaths' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o MergePaths-MergePaths.o `test -f 'MergePaths.cpp' || echo './'`MergePaths.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o MergeContigs-MergeContigs.o `test -f 'MergeContigs.cpp' || echo './'`MergeContigs.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I../SimpleGraph -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PathConsensus-PathConsensus.o `test -f 'PathConsensus.cpp' || echo './'`PathConsensus.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o MergeContigs MergeContigs-MergeContigs.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o MergePaths MergePaths-MergePaths.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PathConsensus PathConsensus-PathConsensus.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm make[4]: Leaving directory '/<>/MergePaths' Making all in Misc make[4]: Entering directory '/<>/Misc' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/Misc' Making all in Overlap make[4]: Entering directory '/<>/Overlap' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Overlap-Overlap.o `test -f 'Overlap.cpp' || echo './'`Overlap.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o Overlap Overlap-Overlap.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Overlap' Making all in PairedDBG make[4]: Entering directory '/<>/PairedDBG' g++ -DHAVE_CONFIG_H -I. -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o KmerPair.o KmerPair.cc g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg-abyss-paired-dbg.o `test -f 'abyss-paired-dbg.cc' || echo './'`abyss-paired-dbg.cc g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_paired_dbg-KmerPair.o `test -f 'KmerPair.cc' || echo './'`KmerPair.cc In file included from Dinuc.h:4:0, from KmerPair.h:4, from KmerPair.cc:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ In file included from Dinuc.h:4:0, from KmerPair.h:4, from KmerPair.cc:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ rm -f libpaireddbg.a ar cru libpaireddbg.a KmerPair.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libpaireddbg.a In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from ../ABYSS/abyss.cc:2, from abyss-paired-dbg.cc:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-paired-dbg abyss_paired_dbg-abyss-paired-dbg.o abyss_paired_dbg-KmerPair.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm make[4]: Leaving directory '/<>/PairedDBG' Making all in ParseAligns make[4]: Entering directory '/<>/ParseAligns' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_fixmate-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_fixmate_ssq-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ParseAligns-ParseAligns.o `test -f 'ParseAligns.cpp' || echo './'`ParseAligns.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-fixmate-ssq abyss_fixmate_ssq-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o ParseAligns ParseAligns-ParseAligns.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-fixmate abyss_fixmate-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/ParseAligns' Making all in PathOverlap make[4]: Entering directory '/<>/PathOverlap' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PathOverlap-PathOverlap.o `test -f 'PathOverlap.cpp' || echo './'`PathOverlap.cpp g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PathOverlap PathOverlap-PathOverlap.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/PathOverlap' Making all in PopBubbles make[4]: Entering directory '/<>/PopBubbles' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PopBubbles-PopBubbles.o `test -f 'PopBubbles.cpp' || echo './'`PopBubbles.cpp g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PopBubbles PopBubbles-PopBubbles.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm make[4]: Leaving directory '/<>/PopBubbles' Making all in Scaffold make[4]: Entering directory '/<>/Scaffold' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_scaffold-scaffold.o `test -f 'scaffold.cc' || echo './'`scaffold.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_junction-junction.o `test -f 'junction.cc' || echo './'`junction.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_longseqdist-longseqdist.o `test -f 'longseqdist.cpp' || echo './'`longseqdist.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_drawgraph-drawgraph.o `test -f 'drawgraph.cc' || echo './'`drawgraph.cc g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-longseqdist abyss_longseqdist-longseqdist.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-junction abyss_junction-junction.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-drawgraph abyss_drawgraph-drawgraph.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-scaffold abyss_scaffold-scaffold.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Scaffold' Making all in SimpleGraph make[4]: Entering directory '/<>/SimpleGraph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-strict-aliasing -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o SimpleGraph-SimpleGraph.o `test -f 'SimpleGraph.cpp' || echo './'`SimpleGraph.cpp g++ -Wall -Wextra -Wno-strict-aliasing -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o SimpleGraph SimpleGraph-SimpleGraph.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -lpthread -ldl -lm make[4]: Leaving directory '/<>/SimpleGraph' Making all in kmerprint make[4]: Entering directory '/<>/kmerprint' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o kmerprint-kmerprint.o `test -f 'kmerprint.cc' || echo './'`kmerprint.cc g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o kmerprint kmerprint-kmerprint.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/kmerprint' Making all in FilterGraph make[4]: Entering directory '/<>/FilterGraph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_filtergraph-FilterGraph.o `test -f 'FilterGraph.cc' || echo './'`FilterGraph.cc g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-filtergraph abyss_filtergraph-FilterGraph.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/FilterGraph' Making all in GapFiller make[4]: Entering directory '/<>/GapFiller' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../Align -D SAM_SEQ_QUAL=1 -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_gapfill-gapfill.o `test -f 'gapfill.cpp' || echo './'`gapfill.cpp g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-gapfill abyss_gapfill-gapfill.o ../Align/libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/GapFiller' Making all in Sealer make[4]: Entering directory '/<>/Sealer' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o abyss_sealer-sealer.o `test -f 'sealer.cc' || echo './'`sealer.cc In file included from ../Bloom/BloomFilter.h:11:0, from ../Bloom/CascadingBloomFilter.h:9, from ../Konnector/konnector.h:5, from sealer.cc:8: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o abyss-sealer abyss_sealer-sealer.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Sealer' Making all in AdjList make[4]: Entering directory '/<>/AdjList' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -DPAIRED_DBG -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o AdjList-AdjList.o `test -f 'AdjList.cpp' || echo './'`AdjList.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/KmerPair.h:4, from AdjList.cpp:29: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o AdjList AdjList-AdjList.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../PairedDBG/libpaireddbg.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm make[4]: Leaving directory '/<>/AdjList' Making all in lib/gtest-1.7.0 make[4]: Entering directory '/<>/lib/gtest-1.7.0' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/lib/gtest-1.7.0' Making all in Unittest make[4]: Entering directory '/<>/Unittest' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/Unittest' make[4]: Entering directory '/<>' multimarkdown README.md >README.html make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a make -j1 check make[1]: Entering directory '/<>' Making check in bin make[2]: Entering directory '/<>/bin' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/bin' Making check in doc make[2]: Entering directory '/<>/doc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/doc' Making check in Common make[2]: Entering directory '/<>/Common' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Common' Making check in Graph make[2]: Entering directory '/<>/Graph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Graph' Making check in DataLayer make[2]: Entering directory '/<>/DataLayer' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DataLayer' Making check in DataBase make[2]: Entering directory '/<>/DataBase' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DataBase' Making check in FMIndex make[2]: Entering directory '/<>/FMIndex' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/FMIndex' Making check in Assembly make[2]: Entering directory '/<>/Assembly' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Assembly' Making check in dialign make[2]: Entering directory '/<>/dialign' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/dialign' Making check in Align make[2]: Entering directory '/<>/Align' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Align' Making check in ABYSS make[2]: Entering directory '/<>/ABYSS' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/ABYSS' Making check in Parallel make[2]: Entering directory '/<>/Parallel' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Parallel' Making check in Bloom make[2]: Entering directory '/<>/Bloom' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Bloom' Making check in Konnector make[2]: Entering directory '/<>/Konnector' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Konnector' Making check in Consensus make[2]: Entering directory '/<>/Consensus' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Consensus' Making check in DAssembler make[2]: Entering directory '/<>/DAssembler' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DAssembler' Making check in DistanceEst make[2]: Entering directory '/<>/DistanceEst' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DistanceEst' Making check in KAligner make[2]: Entering directory '/<>/KAligner' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/KAligner' Making check in Layout make[2]: Entering directory '/<>/Layout' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Layout' Making check in LogKmerCount make[2]: Entering directory '/<>/LogKmerCount' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/LogKmerCount' Making check in Map make[2]: Entering directory '/<>/Map' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Map' Making check in MergePaths make[2]: Entering directory '/<>/MergePaths' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/MergePaths' Making check in Misc make[2]: Entering directory '/<>/Misc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Misc' Making check in Overlap make[2]: Entering directory '/<>/Overlap' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Overlap' Making check in PairedDBG make[2]: Entering directory '/<>/PairedDBG' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PairedDBG' Making check in ParseAligns make[2]: Entering directory '/<>/ParseAligns' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/ParseAligns' Making check in PathOverlap make[2]: Entering directory '/<>/PathOverlap' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PathOverlap' Making check in PopBubbles make[2]: Entering directory '/<>/PopBubbles' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PopBubbles' Making check in Scaffold make[2]: Entering directory '/<>/Scaffold' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Scaffold' Making check in SimpleGraph make[2]: Entering directory '/<>/SimpleGraph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/SimpleGraph' Making check in kmerprint make[2]: Entering directory '/<>/kmerprint' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/kmerprint' Making check in FilterGraph make[2]: Entering directory '/<>/FilterGraph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/FilterGraph' Making check in GapFiller make[2]: Entering directory '/<>/GapFiller' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/GapFiller' Making check in Sealer make[2]: Entering directory '/<>/Sealer' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Sealer' Making check in AdjList make[2]: Entering directory '/<>/AdjList' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/AdjList' Making check in lib/gtest-1.7.0 make[2]: Entering directory '/<>/lib/gtest-1.7.0' make libgtest.a libgtest_main.a make[3]: Entering directory '/<>/lib/gtest-1.7.0' g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o src/libgtest_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc rm -f libgtest.a ar cru libgtest.a src/libgtest_a-gtest-all.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libgtest.a g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o src/libgtest_main_a-gtest_main.o `test -f 'src/gtest_main.cc' || echo './'`src/gtest_main.cc g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o src/libgtest_main_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc rm -f libgtest_main.a ar cru libgtest_main.a src/libgtest_main_a-gtest_main.o src/libgtest_main_a-gtest-all.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libgtest_main.a make[3]: Leaving directory '/<>/lib/gtest-1.7.0' make[2]: Leaving directory '/<>/lib/gtest-1.7.0' Making check in Unittest make[2]: Entering directory '/<>/Unittest' make common_stringutil common_histogram common_bitutil common_kmer common_sequence common_KmerIterator common_sam BloomFilter Konnector_DBGBloom Konnector_DBGBloomAlgorithms graph_ConstrainedBFSVisitor graph_BidirectionalBFS graph_AllPathsSearch graph_HashGraph graph_ConstrainedBidiBFSVisitor graph_ExtendPath Konnector_konnector DBG_LoadAlgorithm PairedDBG_LoadAlgorithm PairedDBG_KmerPair PairedDBG_Dinuc PairedDBG_BranchRecord make[3]: Entering directory '/<>/Unittest' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_stringutil-StringUtilTest.o `test -f 'Common/StringUtilTest.cpp' || echo './'`Common/StringUtilTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_stringutil Common/common_stringutil-StringUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_histogram-HistogramTest.o `test -f 'Common/HistogramTest.cpp' || echo './'`Common/HistogramTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_histogram Common/common_histogram-HistogramTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_bitutil-BitUtilTest.o `test -f 'Common/BitUtilTest.cpp' || echo './'`Common/BitUtilTest.cpp In file included from Common/BitUtilTest.cpp:1:0: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_bitutil Common/common_bitutil-BitUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_kmer-KmerTest.o `test -f 'Common/KmerTest.cpp' || echo './'`Common/KmerTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_kmer Common/common_kmer-KmerTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_sequence-Sequence.o `test -f 'Common/Sequence.cc' || echo './'`Common/Sequence.cc g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_sequence Common/common_sequence-Sequence.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_KmerIterator-KmerIteratorTest.o `test -f 'Common/KmerIteratorTest.cpp' || echo './'`Common/KmerIteratorTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_KmerIterator Common/common_KmerIterator-KmerIteratorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Common/common_sam-SAM.o `test -f 'Common/SAM.cc' || echo './'`Common/SAM.cc g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o common_sam Common/common_sam-SAM.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Konnector/BloomFilter-BloomFilter.o `test -f 'Konnector/BloomFilter.cc' || echo './'`Konnector/BloomFilter.cc In file included from ../Bloom/BloomFilter.h:11:0, from Konnector/BloomFilter.cc:2: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o BloomFilter Konnector/BloomFilter-BloomFilter.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Konnector/Konnector_DBGBloom-DBGBloomTest.o `test -f 'Konnector/DBGBloomTest.cpp' || echo './'`Konnector/DBGBloomTest.cpp In file included from ../Bloom/BloomFilter.h:11:0, from ../Bloom/CascadingBloomFilter.h:9, from Konnector/DBGBloomTest.cpp:2: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o Konnector_DBGBloom Konnector/Konnector_DBGBloom-DBGBloomTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o `test -f 'Konnector/DBGBloomAlgorithmsTest.cpp' || echo './'`Konnector/DBGBloomAlgorithmsTest.cpp In file included from ../Bloom/BloomFilter.h:11:0, from ../Bloom/CascadingBloomFilter.h:9, from Konnector/DBGBloomAlgorithmsTest.cpp:3: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o Konnector_DBGBloomAlgorithms Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o `test -f 'Graph/ConstrainedBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBFSVisitorTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_ConstrainedBFSVisitor Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o `test -f 'Graph/BidirectionalBFSTest.cpp' || echo './'`Graph/BidirectionalBFSTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_BidirectionalBFS Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_AllPathsSearch-AllPathsSearchTest.o `test -f 'Graph/AllPathsSearchTest.cpp' || echo './'`Graph/AllPathsSearchTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_AllPathsSearch Graph/graph_AllPathsSearch-AllPathsSearchTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_HashGraph-HashGraphTest.o `test -f 'Graph/HashGraphTest.cpp' || echo './'`Graph/HashGraphTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_HashGraph Graph/graph_HashGraph-HashGraphTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o `test -f 'Graph/ConstrainedBidiBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBidiBFSVisitorTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_ConstrainedBidiBFSVisitor Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Graph/graph_ExtendPath-ExtendPathTest.o `test -f 'Graph/ExtendPathTest.cpp' || echo './'`Graph/ExtendPathTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graph_ExtendPath Graph/graph_ExtendPath-ExtendPathTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o Konnector/Konnector_konnector-konnectorTest.o `test -f 'Konnector/konnectorTest.cpp' || echo './'`Konnector/konnectorTest.cpp In file included from ../Bloom/BloomFilter.h:11:0, from ../Bloom/CascadingBloomFilter.h:9, from ../Konnector/konnector.h:5, from Konnector/konnectorTest.cpp:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o Konnector_konnector Konnector/Konnector_konnector-konnectorTest.o ../Align/libalign.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'DBG/LoadAlgorithmTest.cpp' || echo './'`DBG/LoadAlgorithmTest.cpp g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o DBG_LoadAlgorithm DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'PairedDBG/LoadAlgorithmTest.cpp' || echo './'`PairedDBG/LoadAlgorithmTest.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from PairedDBG/LoadAlgorithmTest.cpp:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PairedDBG_LoadAlgorithm PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o ../PairedDBG/libpaireddbg.a ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PairedDBG/PairedDBG_KmerPair-KmerPairTest.o `test -f 'PairedDBG/KmerPairTest.cc' || echo './'`PairedDBG/KmerPairTest.cc In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/KmerPair.h:4, from PairedDBG/KmerPairTest.cc:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PairedDBG_KmerPair PairedDBG/PairedDBG_KmerPair-KmerPairTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PairedDBG/PairedDBG_Dinuc-DinucTest.o `test -f 'PairedDBG/DinucTest.cc' || echo './'`PairedDBG/DinucTest.cc In file included from ../PairedDBG/Dinuc.h:4:0, from PairedDBG/DinucTest.cc:1: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PairedDBG_Dinuc PairedDBG/PairedDBG_Dinuc-DinucTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o `test -f 'PairedDBG/BranchRecordTest.cpp' || echo './'`PairedDBG/BranchRecordTest.cpp In file included from ../PairedDBG/Dinuc.h:4:0, from ../PairedDBG/SequenceCollection.h:5, from PairedDBG/BranchRecordTest.cpp:3: ../Common/BitUtil.h:35:19: warning: 'hasPopcnt' defined but not used [-Wunused-variable] static const bool hasPopcnt = havePopcnt(); ^ g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o PairedDBG_BranchRecord PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm make[3]: Leaving directory '/<>/Unittest' make check-TESTS make[3]: Entering directory '/<>/Unittest' make[4]: Entering directory '/<>/Unittest' PASS: common_stringutil PASS: common_histogram PASS: common_bitutil PASS: common_kmer PASS: common_sequence PASS: common_KmerIterator PASS: common_sam PASS: BloomFilter PASS: Konnector_DBGBloom PASS: Konnector_DBGBloomAlgorithms PASS: graph_ConstrainedBFSVisitor PASS: graph_BidirectionalBFS PASS: graph_AllPathsSearch PASS: graph_HashGraph PASS: graph_ConstrainedBidiBFSVisitor PASS: graph_ExtendPath PASS: Konnector_konnector PASS: DBG_LoadAlgorithm PASS: PairedDBG_LoadAlgorithm PASS: PairedDBG_KmerPair PASS: PairedDBG_Dinuc PASS: PairedDBG_BranchRecord ============================================================================ Testsuite summary for ABySS 1.9.0 ============================================================================ # TOTAL: 22 # PASS: 22 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[4]: Leaving directory '/<>/Unittest' make[3]: Leaving directory '/<>/Unittest' make[2]: Leaving directory '/<>/Unittest' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' fakeroot debian/rules binary-arch dh binary-arch --with autoreconf dh_testroot -a dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install --destdir=debian/tmp make -j1 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>' Making install in bin make[3]: Entering directory '/<>/bin' make[4]: Entering directory '/<>/bin' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-bowtie abyss-bowtie2 abyss-bwa abyss-bwasw abyss-bwamem abyss-fatoagp abyss-kaligner abyss-pe abyss-samtoafg abyss-tabtomd abyss-bloom-dist.mk abyss-dida '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/bin' make[3]: Leaving directory '/<>/bin' Making install in doc make[3]: Entering directory '/<>/doc' make[4]: Entering directory '/<>/doc' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/abyss' /usr/bin/install -c -m 644 flowchart.pdf flowchart_simplified.pdf '/<>/debian/tmp/usr/share/doc/abyss' /bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 ABYSS.1 abyss-pe.1 abyss-tofastq.1 '/<>/debian/tmp/usr/share/man/man1' make[4]: Leaving directory '/<>/doc' make[3]: Leaving directory '/<>/doc' Making install in Common make[3]: Entering directory '/<>/Common' make[4]: Entering directory '/<>/Common' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Common' make[3]: Leaving directory '/<>/Common' Making install in Graph make[3]: Entering directory '/<>/Graph' make[4]: Entering directory '/<>/Graph' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-gc abyss-todot '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Graph' make[3]: Leaving directory '/<>/Graph' Making install in DataLayer make[3]: Entering directory '/<>/DataLayer' make[4]: Entering directory '/<>/DataLayer' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-fac abyss-tofastq '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/DataLayer' make[3]: Leaving directory '/<>/DataLayer' Making install in DataBase make[3]: Entering directory '/<>/DataBase' make[4]: Entering directory '/<>/DataBase' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-db-csv '/<>/debian/tmp/usr/bin' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-db-txt '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/DataBase' make[3]: Leaving directory '/<>/DataBase' Making install in FMIndex make[3]: Entering directory '/<>/FMIndex' make[4]: Entering directory '/<>/FMIndex' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/FMIndex' make[3]: Leaving directory '/<>/FMIndex' Making install in Assembly make[3]: Entering directory '/<>/Assembly' make[4]: Entering directory '/<>/Assembly' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Assembly' make[3]: Leaving directory '/<>/Assembly' Making install in dialign make[3]: Entering directory '/<>/dialign' make[4]: Entering directory '/<>/dialign' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/dialign' make[3]: Leaving directory '/<>/dialign' Making install in Align make[3]: Entering directory '/<>/Align' make[4]: Entering directory '/<>/Align' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-align abyss-mergepairs '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Align' make[3]: Leaving directory '/<>/Align' Making install in ABYSS make[3]: Entering directory '/<>/ABYSS' make[4]: Entering directory '/<>/ABYSS' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c ABYSS '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/ABYSS' make[3]: Leaving directory '/<>/ABYSS' Making install in Parallel make[3]: Entering directory '/<>/Parallel' make[4]: Entering directory '/<>/Parallel' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c ABYSS-P abyss-paired-dbg-mpi '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Parallel' make[3]: Leaving directory '/<>/Parallel' Making install in Bloom make[3]: Entering directory '/<>/Bloom' make[4]: Entering directory '/<>/Bloom' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-bloom '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Bloom' make[3]: Leaving directory '/<>/Bloom' Making install in Konnector make[3]: Entering directory '/<>/Konnector' make[4]: Entering directory '/<>/Konnector' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c konnector '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Konnector' make[3]: Leaving directory '/<>/Konnector' Making install in Consensus make[3]: Entering directory '/<>/Consensus' make[4]: Entering directory '/<>/Consensus' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c Consensus '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Consensus' make[3]: Leaving directory '/<>/Consensus' Making install in DAssembler make[3]: Entering directory '/<>/DAssembler' make[4]: Entering directory '/<>/DAssembler' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c DAssembler '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/DAssembler' make[3]: Leaving directory '/<>/DAssembler' Making install in DistanceEst make[3]: Entering directory '/<>/DistanceEst' make[4]: Entering directory '/<>/DistanceEst' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c DistanceEst DistanceEst-ssq '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/DistanceEst' make[3]: Leaving directory '/<>/DistanceEst' Making install in KAligner make[3]: Entering directory '/<>/KAligner' make[4]: Entering directory '/<>/KAligner' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c KAligner '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/KAligner' make[3]: Leaving directory '/<>/KAligner' Making install in Layout make[3]: Entering directory '/<>/Layout' make[4]: Entering directory '/<>/Layout' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-layout '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Layout' make[3]: Leaving directory '/<>/Layout' Making install in LogKmerCount make[3]: Entering directory '/<>/LogKmerCount' make[4]: Entering directory '/<>/LogKmerCount' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c logcounter '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/LogKmerCount' make[3]: Leaving directory '/<>/LogKmerCount' Making install in Map make[3]: Entering directory '/<>/Map' make[4]: Entering directory '/<>/Map' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-index abyss-map abyss-map-ssq abyss-overlap '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Map' make[3]: Leaving directory '/<>/Map' Making install in MergePaths make[3]: Entering directory '/<>/MergePaths' make[4]: Entering directory '/<>/MergePaths' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c MergePaths MergeContigs PathConsensus '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/MergePaths' make[3]: Leaving directory '/<>/MergePaths' Making install in Misc make[3]: Entering directory '/<>/Misc' make[4]: Entering directory '/<>/Misc' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Misc' make[3]: Leaving directory '/<>/Misc' Making install in Overlap make[3]: Entering directory '/<>/Overlap' make[4]: Entering directory '/<>/Overlap' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c Overlap '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Overlap' make[3]: Leaving directory '/<>/Overlap' Making install in PairedDBG make[3]: Entering directory '/<>/PairedDBG' make[4]: Entering directory '/<>/PairedDBG' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-paired-dbg '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/PairedDBG' make[3]: Leaving directory '/<>/PairedDBG' Making install in ParseAligns make[3]: Entering directory '/<>/ParseAligns' make[4]: Entering directory '/<>/ParseAligns' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-fixmate abyss-fixmate-ssq ParseAligns '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/ParseAligns' make[3]: Leaving directory '/<>/ParseAligns' Making install in PathOverlap make[3]: Entering directory '/<>/PathOverlap' make[4]: Entering directory '/<>/PathOverlap' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c PathOverlap '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/PathOverlap' make[3]: Leaving directory '/<>/PathOverlap' Making install in PopBubbles make[3]: Entering directory '/<>/PopBubbles' make[4]: Entering directory '/<>/PopBubbles' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c PopBubbles '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/PopBubbles' make[3]: Leaving directory '/<>/PopBubbles' Making install in Scaffold make[3]: Entering directory '/<>/Scaffold' make[4]: Entering directory '/<>/Scaffold' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-scaffold abyss-junction abyss-longseqdist '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Scaffold' make[3]: Leaving directory '/<>/Scaffold' Making install in SimpleGraph make[3]: Entering directory '/<>/SimpleGraph' make[4]: Entering directory '/<>/SimpleGraph' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c SimpleGraph '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/SimpleGraph' make[3]: Leaving directory '/<>/SimpleGraph' Making install in kmerprint make[3]: Entering directory '/<>/kmerprint' make[4]: Entering directory '/<>/kmerprint' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/kmerprint' make[3]: Leaving directory '/<>/kmerprint' Making install in FilterGraph make[3]: Entering directory '/<>/FilterGraph' make[4]: Entering directory '/<>/FilterGraph' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-filtergraph '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/FilterGraph' make[3]: Leaving directory '/<>/FilterGraph' Making install in GapFiller make[3]: Entering directory '/<>/GapFiller' make[4]: Entering directory '/<>/GapFiller' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-gapfill '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/GapFiller' make[3]: Leaving directory '/<>/GapFiller' Making install in Sealer make[3]: Entering directory '/<>/Sealer' make[4]: Entering directory '/<>/Sealer' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c abyss-sealer '/<>/debian/tmp/usr/bin' make[4]: Leaving directory '/<>/Sealer' make[3]: Leaving directory '/<>/Sealer' Making install in AdjList make[3]: Entering directory '/<>/AdjList' make[4]: Entering directory '/<>/AdjList' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c AdjList '/<>/debian/tmp/usr/bin' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/AdjList' make[3]: Leaving directory '/<>/AdjList' Making install in lib/gtest-1.7.0 make[3]: Entering directory '/<>/lib/gtest-1.7.0' make[4]: Entering directory '/<>/lib/gtest-1.7.0' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/lib/gtest-1.7.0' make[3]: Leaving directory '/<>/lib/gtest-1.7.0' Making install in Unittest make[3]: Entering directory '/<>/Unittest' make[4]: Entering directory '/<>/Unittest' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/Unittest' make[3]: Leaving directory '/<>/Unittest' make[3]: Entering directory '/<>' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/abyss' /usr/bin/install -c -m 644 ChangeLog CITATION.bib CITATION.md COPYRIGHT LICENSE README.css README.html README.md '/<>/debian/tmp/usr/share/doc/abyss' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform s390x: abyss dh_strip debug symbol extraction: packages to act on: abyss dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: package abyss: unused substitution variable ${perl:Depends} /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform s390x: abyss dh_gencontrol debug symbol wrapper: packages to act on: abyss dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: processing package abyss (pkgdir debian/abyss, ddeb package dir debian/abyss-dbgsym) dh_gencontrol debug symbol wrapper: building abyss-dbgsym_1.9.0-1build1_s390x.ddeb dpkg-deb: building package 'abyss-dbgsym' in '../abyss-dbgsym_1.9.0-1build1_s390x.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile abyss-dbgsym_1.9.0-1build1_s390x.ddeb non-free/science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 129 pkgstriptranslations: processing abyss (in debian/abyss); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/abyss/DEBIAN/control, package abyss, directory debian/abyss pkgstripfiles: Truncating usr/share/doc/abyss/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package abyss ... pkgstripfiles: No PNG files. dpkg-deb: building package 'abyss' in '../abyss_1.9.0-1build1_s390x.deb'. dpkg-genchanges -B -mLaunchpad Build Daemon >../abyss_1.9.0-1build1_s390x.changes dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build abyss-1.9.0 dpkg-buildpackage: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20160207-1312 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ abyss_1.9.0-1build1_s390x.changes: ---------------------------------- Format: 1.8 Date: Sun, 07 Feb 2016 12:55:34 +0000 Source: abyss Binary: abyss Architecture: s390x Version: 1.9.0-1build1 Distribution: xenial-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: abyss - de novo, parallel, sequence assembler for short reads Changes: abyss (1.9.0-1build1) xenial; urgency=medium . * No-change rebuild for openmpi transition. Checksums-Sha1: ccb541a02ea1a7e1b96b2e781ab67e9baa15acb1 11403270 abyss-dbgsym_1.9.0-1build1_s390x.ddeb 8f0140993fbb363072cf0cd900bcfd6957ecd628 1191560 abyss_1.9.0-1build1_s390x.deb Checksums-Sha256: d40e448c8cef87ceb23935a87a8c36d46206f3e505dff9dccd5b0fc70766710b 11403270 abyss-dbgsym_1.9.0-1build1_s390x.ddeb 83041bccdf1535f0a6b970d4b965056509ce7ffff501aa102d2b8d2f1b70efb7 1191560 abyss_1.9.0-1build1_s390x.deb Files: c11fba02e1a6b5fdc8f6fe3cd8e5d2f6 11403270 non-free/science extra abyss-dbgsym_1.9.0-1build1_s390x.ddeb 70a334fc1d6f2d4b765f7c42138580f5 1191560 non-free/science optional abyss_1.9.0-1build1_s390x.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ abyss_1.9.0-1build1_s390x.deb ----------------------------- new debian package, version 2.0. size 1191560 bytes: control archive=2451 bytes. 788 bytes, 16 lines control 4055 bytes, 66 lines md5sums Package: abyss Version: 1.9.0-1build1 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7258 Depends: make, libc6 (>= 2.7), libgcc1 (>= 1:4.0), libgomp1 (>= 4.9), libopenmpi1.10, libsqlite3-0 (>= 3.5.9), libstdc++6 (>= 5.2), perl Suggests: openmpi-bin Section: non-free/science Priority: optional Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss Description: de novo, parallel, sequence assembler for short reads ABySS is a de novo, parallel, sequence assembler that is designed for short reads. It may be used to assemble genome or transcriptome sequence data. Parallelization is achieved using MPI, OpenMP and pthread. drwxr-xr-x root/root 0 2016-02-07 13:12 ./ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/bin/ -rwxr-xr-x root/root 163320 2016-02-07 13:12 ./usr/bin/DistanceEst -rwxr-xr-x root/root 150960 2016-02-07 13:12 ./usr/bin/abyss-fixmate -rwxr-xr-x root/root 17158 2016-02-07 13:12 ./usr/bin/abyss-pe drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/lib/ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/lib/abyss/ -rwxr-xr-x root/root 270296 2016-02-07 13:12 ./usr/lib/abyss/ABYSS -rwxr-xr-x root/root 328032 2016-02-07 13:12 ./usr/lib/abyss/ABYSS-P -rwxr-xr-x root/root 183880 2016-02-07 13:12 ./usr/lib/abyss/AdjList -rwxr-xr-x root/root 77056 2016-02-07 13:12 ./usr/lib/abyss/Consensus -rwxr-xr-x root/root 105688 2016-02-07 13:12 ./usr/lib/abyss/DAssembler -rwxr-xr-x root/root 163320 2016-02-07 13:12 ./usr/lib/abyss/DistanceEst -rwxr-xr-x root/root 163328 2016-02-07 13:12 ./usr/lib/abyss/DistanceEst-ssq -rwxr-xr-x root/root 200288 2016-02-07 13:12 ./usr/lib/abyss/KAligner -rwxr-xr-x root/root 229024 2016-02-07 13:12 ./usr/lib/abyss/MergeContigs -rwxr-xr-x root/root 196032 2016-02-07 13:12 ./usr/lib/abyss/MergePaths -rwxr-xr-x root/root 175520 2016-02-07 13:12 ./usr/lib/abyss/Overlap -rwxr-xr-x root/root 97520 2016-02-07 13:12 ./usr/lib/abyss/ParseAligns -rwxr-xr-x root/root 356200 2016-02-07 13:12 ./usr/lib/abyss/PathConsensus -rwxr-xr-x root/root 179624 2016-02-07 13:12 ./usr/lib/abyss/PathOverlap -rwxr-xr-x root/root 187832 2016-02-07 13:12 ./usr/lib/abyss/PopBubbles -rwxr-xr-x root/root 183800 2016-02-07 13:12 ./usr/lib/abyss/SimpleGraph -rwxr-xr-x root/root 191952 2016-02-07 13:12 ./usr/lib/abyss/abyss-align -rwxr-xr-x root/root 130472 2016-02-07 13:12 ./usr/lib/abyss/abyss-bloom -rwxr-xr-x root/root 6491 2016-02-07 13:12 ./usr/lib/abyss/abyss-bloom-dist.mk -rwxr-xr-x root/root 1135 2016-02-07 13:12 ./usr/lib/abyss/abyss-bowtie -rwxr-xr-x root/root 1192 2016-02-07 13:12 ./usr/lib/abyss/abyss-bowtie2 -rwxr-xr-x root/root 1208 2016-02-07 13:12 ./usr/lib/abyss/abyss-bwa -rwxr-xr-x root/root 1454 2016-02-07 13:12 ./usr/lib/abyss/abyss-bwamem -rwxr-xr-x root/root 1362 2016-02-07 13:12 ./usr/lib/abyss/abyss-bwasw -rwxr-xr-x root/root 72448 2016-02-07 13:12 ./usr/lib/abyss/abyss-db-csv -rwxr-xr-x root/root 703 2016-02-07 13:12 ./usr/lib/abyss/abyss-db-txt -rwxr-xr-x root/root 2722 2016-02-07 13:12 ./usr/lib/abyss/abyss-dida -rwxr-xr-x root/root 85248 2016-02-07 13:12 ./usr/lib/abyss/abyss-fac -rwxr-xr-x root/root 1326 2016-02-07 13:12 ./usr/lib/abyss/abyss-fatoagp -rwxr-xr-x root/root 171400 2016-02-07 13:12 ./usr/lib/abyss/abyss-filtergraph -rwxr-xr-x root/root 150960 2016-02-07 13:12 ./usr/lib/abyss/abyss-fixmate -rwxr-xr-x root/root 150960 2016-02-07 13:12 ./usr/lib/abyss/abyss-fixmate-ssq -rwxr-xr-x root/root 101688 2016-02-07 13:12 ./usr/lib/abyss/abyss-gapfill -rwxr-xr-x root/root 93304 2016-02-07 13:12 ./usr/lib/abyss/abyss-gc -rwxr-xr-x root/root 97416 2016-02-07 13:12 ./usr/lib/abyss/abyss-index -rwxr-xr-x root/root 105640 2016-02-07 13:12 ./usr/lib/abyss/abyss-junction -rwxr-xr-x root/root 39 2016-02-07 13:12 ./usr/lib/abyss/abyss-kaligner -rwxr-xr-x root/root 126136 2016-02-07 13:12 ./usr/lib/abyss/abyss-layout -rwxr-xr-x root/root 101392 2016-02-07 13:12 ./usr/lib/abyss/abyss-longseqdist -rwxr-xr-x root/root 192064 2016-02-07 13:12 ./usr/lib/abyss/abyss-map -rwxr-xr-x root/root 196160 2016-02-07 13:12 ./usr/lib/abyss/abyss-map-ssq -rwxr-xr-x root/root 81184 2016-02-07 13:12 ./usr/lib/abyss/abyss-mergepairs -rwxr-xr-x root/root 196096 2016-02-07 13:12 ./usr/lib/abyss/abyss-overlap -rwxr-xr-x root/root 278520 2016-02-07 13:12 ./usr/lib/abyss/abyss-paired-dbg -rwxr-xr-x root/root 336248 2016-02-07 13:12 ./usr/lib/abyss/abyss-paired-dbg-mpi -rwxr-xr-x root/root 17158 2016-02-07 13:12 ./usr/lib/abyss/abyss-pe -rwxr-xr-x root/root 4501 2016-02-07 13:12 ./usr/lib/abyss/abyss-samtoafg -rwxr-xr-x root/root 232944 2016-02-07 13:12 ./usr/lib/abyss/abyss-scaffold -rwxr-xr-x root/root 204472 2016-02-07 13:12 ./usr/lib/abyss/abyss-sealer -rwxr-xr-x root/root 209 2016-02-07 13:12 ./usr/lib/abyss/abyss-tabtomd -rwxr-xr-x root/root 146576 2016-02-07 13:12 ./usr/lib/abyss/abyss-todot -rwxr-xr-x root/root 68800 2016-02-07 13:12 ./usr/lib/abyss/abyss-tofastq -rwxr-xr-x root/root 212632 2016-02-07 13:12 ./usr/lib/abyss/konnector -rwxr-xr-x root/root 77128 2016-02-07 13:12 ./usr/lib/abyss/logcounter drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/share/ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/share/doc/abyss/ -rw-r--r-- root/root 704 2015-05-29 21:53 ./usr/share/doc/abyss/README.css -rw-r--r-- root/root 24641 2016-02-07 13:11 ./usr/share/doc/abyss/README.html -rw-r--r-- root/root 7073 2016-02-07 13:08 ./usr/share/doc/abyss/README.md.gz -rw-r--r-- root/root 1560 2016-02-07 13:12 ./usr/share/doc/abyss/changelog.Debian.gz -rw-r--r-- root/root 6052 2015-07-16 09:29 ./usr/share/doc/abyss/copyright -rw-r--r-- root/root 66778 2015-05-29 21:53 ./usr/share/doc/abyss/flowchart.pdf.gz drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/share/man/ drwxr-xr-x root/root 0 2016-02-07 13:12 ./usr/share/man/man1/ -rw-r--r-- root/root 1200 2016-02-07 13:12 ./usr/share/man/man1/ABYSS.1.gz -rw-r--r-- root/root 3484 2016-02-07 13:12 ./usr/share/man/man1/abyss-pe.1.gz -rw-r--r-- root/root 409 2016-02-07 13:12 ./usr/share/man/man1/abyss-tofastq.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build-Space: 443856 Build-Time: 249 Distribution: xenial-proposed Host Architecture: s390x Install-Time: 45 Job: abyss_1.9.0-1build1.dsc Machine Architecture: s390x Package: abyss Package-Time: 294 Source-Version: 1.9.0-1build1 Space: 443856 Status: successful Version: 1.9.0-1build1 -------------------------------------------------------------------------------- Finished at 20160207-1312 Build needed 00:04:54, 443856k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-8979605'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-8979605/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-8979605'] Unmounting chroot for build PACKAGEBUILD-8979605... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-8979605'] Removing build PACKAGEBUILD-8979605