RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux bos01-ppc64el-017 4.4.0-87-generic #110-Ubuntu SMP Tue Jul 18 12:53:44 UTC 2017 ppc64le Buildd toolchain package versions: launchpad-buildd_147 python-lpbuildd_147 sbuild_0.67.0-2ubuntu7 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.1 dpkg-dev_1.18.4ubuntu1.2 python-debian_0.1.27ubuntu2 qemu-user-static_1:2.5+dfsg-5ubuntu10.14. Syncing the system clock with the buildd NTP service... 29 Jul 17:45:46 ntpdate[1724]: adjust time server 10.211.37.1 offset 0.002151 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-13170041', '/home/buildd/filecache-default/6f2309b02db3cfdb85003f9659f6426e55596487'] Unpacking chroot for build PACKAGEBUILD-13170041 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-13170041'] Mounting chroot for build PACKAGEBUILD-13170041 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-13170041', 'deb http://ftpmaster.internal/ubuntu artful main universe', 'deb http://ftpmaster.internal/ubuntu artful-security main universe', 'deb http://ftpmaster.internal/ubuntu artful-updates main universe', 'deb http://ftpmaster.internal/ubuntu artful-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-13170041 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-13170041', 'ppc64el'] Updating debian chroot for build PACKAGEBUILD-13170041 Get:1 http://ftpmaster.internal/ubuntu artful InRelease [237 kB] Get:2 http://ftpmaster.internal/ubuntu artful-security InRelease [65.5 kB] Get:3 http://ftpmaster.internal/ubuntu artful-updates InRelease [65.5 kB] Get:4 http://ftpmaster.internal/ubuntu artful-proposed InRelease [235 kB] Get:5 http://ftpmaster.internal/ubuntu artful/main ppc64el Packages [1100 kB] Get:6 http://ftpmaster.internal/ubuntu artful/main Translation-en [558 kB] Get:7 http://ftpmaster.internal/ubuntu artful/universe ppc64el Packages [7997 kB] Get:8 http://ftpmaster.internal/ubuntu artful/universe Translation-en [4776 kB] Get:9 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el Packages [104 kB] Get:10 http://ftpmaster.internal/ubuntu artful-proposed/main Translation-en [63.8 kB] Get:11 http://ftpmaster.internal/ubuntu artful-proposed/universe ppc64el Packages [343 kB] Get:12 http://ftpmaster.internal/ubuntu artful-proposed/universe Translation-en [219 kB] Fetched 15.8 MB in 3s (4079 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.24 perl-modules-5.24 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: gcc-7-base libperl5.26 perl-modules-5.26 The following packages will be upgraded: advancecomp apt apt-transport-https base-files bash binutils bsdutils ca-certificates cpp cpp-6 debconf debianutils dmsetup dpkg dpkg-dev findutils g++ g++-6 gcc gcc-6 gcc-6-base grep init init-system-helpers libapparmor1 libapt-pkg5.0 libasan3 libasn1-8-heimdal libatomic1 libaudit-common libaudit1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libdb5.3 libdevmapper1.02.1 libdpkg-perl libfdisk1 libgcc-6-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn2-0 libip4tc0 libitm1 libk5crypto3 libkmod2 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma5 libmount1 libnpth0 libp11-kit0 libpcre3 libperl5.24 libpng16-16 libpsl5 libroken18-heimdal libselinux1 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libssl1.0.0 libstdc++-6-dev libstdc++6 libsystemd0 libtasn1-6 libubsan0 libudev1 libusb-0.1-4 libuuid1 libwind0-heimdal linux-libc-dev login mount multiarch-support openssl passwd perl perl-base perl-modules-5.24 sensible-utils systemd systemd-sysv tar tzdata util-linux xz-utils 104 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 61.8 MB of archives. After this operation, 47.5 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu artful/main ppc64el debconf all 1.5.63 [136 kB] Get:2 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el perl ppc64el 5.26.0-4 [205 kB] Get:3 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el perl-modules-5.26 all 5.26.0-4 [2762 kB] Get:4 http://ftpmaster.internal/ubuntu artful/main ppc64el libperl5.24 ppc64el 5.24.1-7ubuntu1 [3316 kB] Get:5 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libperl5.26 ppc64el 5.26.0-4 [3343 kB] Get:6 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el perl-base ppc64el 5.26.0-4 [1258 kB] Get:7 http://ftpmaster.internal/ubuntu artful/main ppc64el perl-modules-5.24 all 5.24.1-7ubuntu1 [2664 kB] Get:8 http://ftpmaster.internal/ubuntu artful/main ppc64el libc6-dev ppc64el 2.24-12ubuntu1 [2240 kB] Get:9 http://ftpmaster.internal/ubuntu artful/main ppc64el libc-dev-bin ppc64el 2.24-12ubuntu1 [64.5 kB] Get:10 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el linux-libc-dev ppc64el 4.11.0-11.16 [920 kB] Get:11 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el gcc-7-base ppc64el 7.1.0-10ubuntu1 [18.6 kB] Get:12 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libgcc1 ppc64el 1:7.1.0-10ubuntu1 [29.7 kB] Get:13 http://ftpmaster.internal/ubuntu artful/main ppc64el libc6 ppc64el 2.24-12ubuntu1 [2447 kB] Get:14 http://ftpmaster.internal/ubuntu artful/main ppc64el libdb5.3 ppc64el 5.3.28-13 [628 kB] Get:15 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el init-system-helpers all 1.49 [37.0 kB] Get:16 http://ftpmaster.internal/ubuntu artful/main ppc64el base-files ppc64el 9.6ubuntu101 [59.1 kB] Get:17 http://ftpmaster.internal/ubuntu artful/main ppc64el sensible-utils all 0.0.9+nmu1 [10.2 kB] Get:18 http://ftpmaster.internal/ubuntu artful/main ppc64el debianutils ppc64el 4.8.1.1 [85.9 kB] Get:19 http://ftpmaster.internal/ubuntu artful/main ppc64el bash ppc64el 4.4-5ubuntu1 [644 kB] Get:20 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el bsdutils ppc64el 1:2.30.1-0ubuntu1 [58.1 kB] Get:21 http://ftpmaster.internal/ubuntu artful/main ppc64el tar ppc64el 1.29b-2 [240 kB] Get:22 http://ftpmaster.internal/ubuntu artful/main ppc64el dpkg ppc64el 1.18.24ubuntu1 [1122 kB] Get:23 http://ftpmaster.internal/ubuntu artful/main ppc64el findutils ppc64el 4.6.0+git+20170606-3 [299 kB] Get:24 http://ftpmaster.internal/ubuntu artful/main ppc64el grep ppc64el 3.1-2 [150 kB] Get:25 http://ftpmaster.internal/ubuntu artful/main ppc64el login ppc64el 1:4.2-3.2ubuntu2 [301 kB] Get:26 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libuuid1 ppc64el 2.30.1-0ubuntu1 [14.9 kB] Get:27 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libblkid1 ppc64el 2.30.1-0ubuntu1 [110 kB] Get:28 http://ftpmaster.internal/ubuntu artful/main ppc64el libpcre3 ppc64el 2:8.39-4 [222 kB] Get:29 http://ftpmaster.internal/ubuntu artful/main ppc64el libselinux1 ppc64el 2.6-3build1 [67.0 kB] Get:30 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libmount1 ppc64el 2.30.1-0ubuntu1 [118 kB] Get:31 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libfdisk1 ppc64el 2.30.1-0ubuntu1 [143 kB] Get:32 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libsmartcols1 ppc64el 2.30.1-0ubuntu1 [73.8 kB] Get:33 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el util-linux ppc64el 2.30.1-0ubuntu1 [906 kB] Get:34 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el mount ppc64el 2.30.1-0ubuntu1 [124 kB] Get:35 http://ftpmaster.internal/ubuntu artful/main ppc64el libc-bin ppc64el 2.24-12ubuntu1 [575 kB] Get:36 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el liblzma5 ppc64el 5.2.2-1.3 [101 kB] Get:37 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libstdc++6 ppc64el 7.1.0-10ubuntu1 [447 kB] Get:38 http://ftpmaster.internal/ubuntu artful/main ppc64el libapt-pkg5.0 ppc64el 1.5~beta1 [827 kB] Get:39 http://ftpmaster.internal/ubuntu artful/main ppc64el apt-transport-https ppc64el 1.5~beta1 [39.4 kB] Get:40 http://ftpmaster.internal/ubuntu artful/main ppc64el libp11-kit0 ppc64el 0.23.7-3 [152 kB] Get:41 http://ftpmaster.internal/ubuntu artful/main ppc64el libtasn1-6 ppc64el 4.12-2.1 [35.8 kB] Get:42 http://ftpmaster.internal/ubuntu artful/main ppc64el libgnutls30 ppc64el 3.5.8-6ubuntu1 [576 kB] Get:43 http://ftpmaster.internal/ubuntu artful/main ppc64el apt ppc64el 1.5~beta1 [1134 kB] Get:44 http://ftpmaster.internal/ubuntu artful/main ppc64el libip4tc0 ppc64el 1.6.1-2ubuntu1 [20.4 kB] Get:45 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libapparmor1 ppc64el 2.11.0-2ubuntu10 [29.1 kB] Get:46 http://ftpmaster.internal/ubuntu artful/main ppc64el libaudit-common all 1:2.7.7-1ubuntu1 [4118 B] Get:47 http://ftpmaster.internal/ubuntu artful/main ppc64el libcap-ng0 ppc64el 0.7.7-3build1 [11.1 kB] Get:48 http://ftpmaster.internal/ubuntu artful/main ppc64el libaudit1 ppc64el 1:2.7.7-1ubuntu1 [40.3 kB] Get:49 http://ftpmaster.internal/ubuntu artful/main ppc64el libgpg-error0 ppc64el 1.27-3 [38.5 kB] Get:50 http://ftpmaster.internal/ubuntu artful/main ppc64el libgcrypt20 ppc64el 1.7.8-2 [415 kB] Get:51 http://ftpmaster.internal/ubuntu artful/main ppc64el libkmod2 ppc64el 24-1ubuntu1 [36.4 kB] Get:52 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el systemd ppc64el 234-2ubuntu1 [2672 kB] Get:53 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libsystemd0 ppc64el 234-2ubuntu1 [207 kB] Get:54 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el init ppc64el 1.49 [6040 B] Get:55 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el systemd-sysv ppc64el 234-2ubuntu1 [13.8 kB] Get:56 http://ftpmaster.internal/ubuntu artful/main ppc64el libsemanage-common all 2.6-2build1 [6738 B] Get:57 http://ftpmaster.internal/ubuntu artful/main ppc64el libsemanage1 ppc64el 2.6-2build1 [75.7 kB] Get:58 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libudev1 ppc64el 234-2ubuntu1 [54.3 kB] Get:59 http://ftpmaster.internal/ubuntu artful/main ppc64el passwd ppc64el 1:4.2-3.2ubuntu2 [754 kB] Get:60 http://ftpmaster.internal/ubuntu artful/main ppc64el multiarch-support ppc64el 2.24-12ubuntu1 [6838 B] Get:61 http://ftpmaster.internal/ubuntu artful/main ppc64el libdevmapper1.02.1 ppc64el 2:1.02.137-2ubuntu2 [128 kB] Get:62 http://ftpmaster.internal/ubuntu artful/main ppc64el dmsetup ppc64el 2:1.02.137-2ubuntu2 [69.8 kB] Get:63 http://ftpmaster.internal/ubuntu artful/main ppc64el libroken18-heimdal ppc64el 7.4.0.dfsg.1-2 [39.1 kB] Get:64 http://ftpmaster.internal/ubuntu artful/main ppc64el libasn1-8-heimdal ppc64el 7.4.0.dfsg.1-2 [137 kB] Get:65 http://ftpmaster.internal/ubuntu artful/main ppc64el libheimbase1-heimdal ppc64el 7.4.0.dfsg.1-2 [28.5 kB] Get:66 http://ftpmaster.internal/ubuntu artful/main ppc64el libhcrypto4-heimdal ppc64el 7.4.0.dfsg.1-2 [94.2 kB] Get:67 http://ftpmaster.internal/ubuntu artful/main ppc64el libwind0-heimdal ppc64el 7.4.0.dfsg.1-2 [47.9 kB] Get:68 http://ftpmaster.internal/ubuntu artful/main ppc64el libhx509-5-heimdal ppc64el 7.4.0.dfsg.1-2 [101 kB] Get:69 http://ftpmaster.internal/ubuntu artful/main ppc64el libsqlite3-0 ppc64el 3.19.3-3 [444 kB] Get:70 http://ftpmaster.internal/ubuntu artful/main ppc64el libkrb5-26-heimdal ppc64el 7.4.0.dfsg.1-2 [194 kB] Get:71 http://ftpmaster.internal/ubuntu artful/main ppc64el libheimntlm0-heimdal ppc64el 7.4.0.dfsg.1-2 [15.6 kB] Get:72 http://ftpmaster.internal/ubuntu artful/main ppc64el libgssapi3-heimdal ppc64el 7.4.0.dfsg.1-2 [86.2 kB] Get:73 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libldap-2.4-2 ppc64el 2.4.45+dfsg-1ubuntu1 [144 kB] Get:74 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libldap-common all 2.4.45+dfsg-1ubuntu1 [16.6 kB] Get:75 http://ftpmaster.internal/ubuntu artful/main ppc64el libnpth0 ppc64el 1.5-2 [7560 B] Get:76 http://ftpmaster.internal/ubuntu artful/main ppc64el libssl1.0.0 ppc64el 1.0.2g-1ubuntu13 [822 kB] Get:77 http://ftpmaster.internal/ubuntu artful/main ppc64el tzdata all 2017b-2 [203 kB] Get:78 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el xz-utils ppc64el 5.2.2-1.3 [82.5 kB] Get:79 http://ftpmaster.internal/ubuntu artful/main ppc64el openssl ppc64el 1.0.2g-1ubuntu13 [483 kB] Get:80 http://ftpmaster.internal/ubuntu artful/main ppc64el ca-certificates all 20161130+nmu1 [186 kB] Get:81 http://ftpmaster.internal/ubuntu artful/main ppc64el libgssapi-krb5-2 ppc64el 1.15.1-2 [109 kB] Get:82 http://ftpmaster.internal/ubuntu artful/main ppc64el libkrb5-3 ppc64el 1.15.1-2 [269 kB] Get:83 http://ftpmaster.internal/ubuntu artful/main ppc64el libkrb5support0 ppc64el 1.15.1-2 [31.3 kB] Get:84 http://ftpmaster.internal/ubuntu artful/main ppc64el libk5crypto3 ppc64el 1.15.1-2 [99.7 kB] Get:85 http://ftpmaster.internal/ubuntu artful/main ppc64el libidn2-0 ppc64el 2.0.2-1 [93.2 kB] Get:86 http://ftpmaster.internal/ubuntu artful/main ppc64el libpng16-16 ppc64el 1.6.30-2 [192 kB] Get:87 http://ftpmaster.internal/ubuntu artful/main ppc64el libpsl5 ppc64el 0.17.0-5 [41.5 kB] Get:88 http://ftpmaster.internal/ubuntu artful/main ppc64el advancecomp ppc64el 2.0-1 [255 kB] Get:89 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el binutils ppc64el 2.29-1ubuntu1 [2376 kB] Get:90 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libgomp1 ppc64el 7.1.0-10ubuntu1 [69.3 kB] Get:91 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libitm1 ppc64el 7.1.0-10ubuntu1 [29.8 kB] Get:92 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libubsan0 ppc64el 7.1.0-10ubuntu1 [129 kB] Get:93 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libatomic1 ppc64el 7.1.0-10ubuntu1 [8478 B] Get:94 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libasan3 ppc64el 6.4.0-2ubuntu1 [279 kB] Get:95 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el g++-6 ppc64el 6.4.0-2ubuntu1 [6446 kB] Get:96 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libstdc++-6-dev ppc64el 6.4.0-2ubuntu1 [1442 kB] Get:97 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el gcc-6 ppc64el 6.4.0-2ubuntu1 [6269 kB] Get:98 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libgcc-6-dev ppc64el 6.4.0-2ubuntu1 [657 kB] Get:99 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el libcc1-0 ppc64el 7.1.0-10ubuntu1 [39.1 kB] Get:100 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el cpp-6 ppc64el 6.4.0-2ubuntu1 [5663 kB] Get:101 http://ftpmaster.internal/ubuntu artful-proposed/main ppc64el gcc-6-base ppc64el 6.4.0-2ubuntu1 [17.2 kB] Get:102 http://ftpmaster.internal/ubuntu artful/main ppc64el cpp ppc64el 4:6.3.0-2ubuntu2 [27.5 kB] Get:103 http://ftpmaster.internal/ubuntu artful/main ppc64el dpkg-dev all 1.18.24ubuntu1 [608 kB] Get:104 http://ftpmaster.internal/ubuntu artful/main ppc64el libdpkg-perl all 1.18.24ubuntu1 [209 kB] Get:105 http://ftpmaster.internal/ubuntu artful/main ppc64el gcc ppc64el 4:6.3.0-2ubuntu2 [5270 B] Get:106 http://ftpmaster.internal/ubuntu artful/main ppc64el g++ ppc64el 4:6.3.0-2ubuntu2 [1478 B] Get:107 http://ftpmaster.internal/ubuntu artful/main ppc64el libusb-0.1-4 ppc64el 2:0.1.12-31 [16.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 61.8 MB in 1s (49.3 MB/s) (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 ... 14161 files and directories currently installed.) Preparing to unpack .../apt_1.5~beta1_ppc64el.deb ... Unpacking apt (1.5~beta1) over (1.4.1ubuntu2) ... Setting up apt (1.5~beta1) ... (Reading database ... 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Unpacking libaudit-common (1:2.7.7-1ubuntu1) over (1:2.6.6-1ubuntu1) ... Setting up libaudit-common (1:2.7.7-1ubuntu1) ... (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 ... 14160 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.7-3build1_ppc64el.deb ... Unpacking libcap-ng0:ppc64el (0.7.7-3build1) over (0.7.7-3) ... Setting up libcap-ng0:ppc64el (0.7.7-3build1) ... (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 ... 14160 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.7.7-1ubuntu1_ppc64el.deb ... Unpacking libaudit1:ppc64el (1:2.7.7-1ubuntu1) over (1:2.6.6-1ubuntu1) ... Setting up libaudit1:ppc64el (1:2.7.7-1ubuntu1) ... (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 ... 14160 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.7.8-2_ppc64el.deb ... Unpacking libgcrypt20:ppc64el (1.7.8-2) over (1.7.6-1) ... Setting up libgcrypt20:ppc64el (1.7.8-2) ... (Reading database ... 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Unpacking systemd (234-2ubuntu1) over (232-21ubuntu3) ... dpkg: warning: unable to delete old directory '/etc/dbus-1/system.d': Directory not empty dpkg: warning: unable to delete old directory '/etc/dbus-1': Directory not empty Preparing to unpack .../libsystemd0_234-2ubuntu1_ppc64el.deb ... Unpacking libsystemd0:ppc64el (234-2ubuntu1) over (232-21ubuntu3) ... Setting up libsystemd0:ppc64el (234-2ubuntu1) ... (Reading database ... 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Installing new version of config file /etc/systemd/resolved.conf ... Created symlink /etc/systemd/system/dbus-org.freedesktop.resolve1.service -> /lib/systemd/system/systemd-resolved.service. Created symlink /etc/systemd/system/multi-user.target.wants/systemd-resolved.service -> /lib/systemd/system/systemd-resolved.service. addgroup: The group `systemd-journal' already exists as a system group. Exiting. Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.hostname1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.locale1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.login1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.network1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.resolve1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.systemd1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.timedate1.conf ... 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Preparing to unpack .../44-libdpkg-perl_1.18.24ubuntu1_all.deb ... Unpacking libdpkg-perl (1.18.24ubuntu1) over (1.18.23ubuntu4) ... Preparing to unpack .../45-gcc_4%3a6.3.0-2ubuntu2_ppc64el.deb ... Removing old gcc doc directory. Unpacking gcc (4:6.3.0-2ubuntu2) over (4:6.3.0-2ubuntu1) ... Preparing to unpack .../46-g++_4%3a6.3.0-2ubuntu2_ppc64el.deb ... Unpacking g++ (4:6.3.0-2ubuntu2) over (4:6.3.0-2ubuntu1) ... Preparing to unpack .../47-libusb-0.1-4_2%3a0.1.12-31_ppc64el.deb ... Unpacking libusb-0.1-4:ppc64el (2:0.1.12-31) over (2:0.1.12-30) ... Setting up libnpth0:ppc64el (1.5-2) ... Setting up libgomp1:ppc64el (7.1.0-10ubuntu1) ... Setting up libatomic1:ppc64el (7.1.0-10ubuntu1) ... Setting up perl-modules-5.24 (5.24.1-7ubuntu1) ... Setting up libperl5.24:ppc64el (5.24.1-7ubuntu1) ... Setting up libcc1-0:ppc64el (7.1.0-10ubuntu1) ... Setting up apt-transport-https (1.5~beta1) ... Setting up libidn2-0:ppc64el (2.0.2-1) ... Setting up libssl1.0.0:ppc64el (1.0.2g-1ubuntu13) ... Setting up libpng16-16:ppc64el (1.6.30-2) ... Setting up libldap-common (2.4.45+dfsg-1ubuntu1) ... Setting up libpsl5:ppc64el (0.17.0-5) ... Setting up multiarch-support (2.24-12ubuntu1) ... Setting up tzdata (2017b-2) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Jul 29 17:46:12 UTC 2017. Universal Time is now: Sat Jul 29 17:46:12 UTC 2017. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (234-2ubuntu1) ... Setting up libubsan0:ppc64el (7.1.0-10ubuntu1) ... Setting up gcc-6-base:ppc64el (6.4.0-2ubuntu1) ... Setting up linux-libc-dev:ppc64el (4.11.0-11.16) ... Setting up advancecomp (2.0-1) ... Setting up libroken18-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libdevmapper1.02.1:ppc64el (2:1.02.137-2ubuntu2) ... Setting up perl-modules-5.26 (5.26.0-4) ... Setting up libkrb5support0:ppc64el (1.15.1-2) ... Processing triggers for libc-bin (2.24-12ubuntu1) ... Setting up libperl5.26:ppc64el (5.26.0-4) ... Setting up xz-utils (5.2.2-1.3) ... Setting up libheimbase1-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up openssl (1.0.2g-1ubuntu13) ... Setting up libsqlite3-0:ppc64el (3.19.3-3) ... Setting up dmsetup (2:1.02.137-2ubuntu2) ... Setting up binutils (2.29-1ubuntu1) ... Setting up cpp-6 (6.4.0-2ubuntu1) ... Setting up libc-dev-bin (2.24-12ubuntu1) ... Setting up ca-certificates (20161130+nmu1) ... Updating certificates in /etc/ssl/certs... 0 added, 7 removed; done. Setting up libc6-dev:ppc64el (2.24-12ubuntu1) ... Setting up libusb-0.1-4:ppc64el (2:0.1.12-31) ... Setting up libitm1:ppc64el (7.1.0-10ubuntu1) ... Setting up cpp (4:6.3.0-2ubuntu2) ... Setting up libk5crypto3:ppc64el (1.15.1-2) ... Setting up libasan3:ppc64el (6.4.0-2ubuntu1) ... Setting up libgcc-6-dev:ppc64el (6.4.0-2ubuntu1) ... Setting up libstdc++-6-dev:ppc64el (6.4.0-2ubuntu1) ... Setting up libwind0-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up init (1.49) ... Setting up libasn1-8-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libhcrypto4-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libhx509-5-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up gcc-6 (6.4.0-2ubuntu1) ... Setting up g++-6 (6.4.0-2ubuntu1) ... Setting up perl (5.26.0-4) ... Removing obsolete conffile /etc/perl/sitecustomize.pl ... Setting up libkrb5-3:ppc64el (1.15.1-2) ... Setting up libkrb5-26-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libheimntlm0-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libdpkg-perl (1.18.24ubuntu1) ... Setting up gcc (4:6.3.0-2ubuntu2) ... Setting up libgssapi-krb5-2:ppc64el (1.15.1-2) ... Setting up dpkg-dev (1.18.24ubuntu1) ... Setting up g++ (4:6.3.0-2ubuntu2) ... Setting up libgssapi3-heimdal:ppc64el (7.4.0.dfsg.1-2) ... Setting up libldap-2.4-2:ppc64el (2.4.45+dfsg-1ubuntu1) ... Processing triggers for libc-bin (2.24-12ubuntu1) ... Processing triggers for ca-certificates (20161130+nmu1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-13170041', 'ppc64el', 'artful-proposed', '-c', 'chroot:autobuild', '--arch=ppc64el', '--dist=artful-proposed', '--purge=never', '--nolog', 'stacks_1.46-1build1.dsc'] Initiating build PACKAGEBUILD-13170041 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-87-generic #110-Ubuntu SMP Tue Jul 18 12:53:44 UTC 2017 ppc64le sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos01-ppc64el-017.buildd +==============================================================================+ | stacks 1.46-1build1 (ppc64el) 29 Jul 2017 17:46 | +==============================================================================+ Package: stacks Version: 1.46-1build1 Source Version: 1.46-1build1 Distribution: artful-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el I: NOTICE: Log filtering will replace 'build/stacks-zTdL5w/stacks-1.46' with '<>' I: NOTICE: Log filtering will replace 'build/stacks-zTdL5w' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-13170041/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- stacks_1.46-1build1.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-HLUAa_/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-HLUAa_/apt_archive ./ InRelease Get:2 copy:/<>/resolver-HLUAa_/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-HLUAa_/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-HLUAa_/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-HLUAa_/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (0 B/s) 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 packages were automatically installed and are no longer required: libperl5.24 perl-modules-5.24 Use 'sudo apt autoremove' to remove them. 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 780 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-HLUAa_/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [780 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 780 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 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Merged Build-Depends: debhelper (>= 10), python, zlib1g-dev, libbam-dev, libsparsehash-dev (>= 2.0), samtools Filtered Build-Depends: debhelper (>= 10), python, zlib1g-dev, libbam-dev, libsparsehash-dev (>= 2.0), samtools dpkg-deb: building package 'sbuild-build-depends-stacks-dummy' in '/<>/resolver-m2vJVD/apt_archive/sbuild-build-depends-stacks-dummy.deb'. Ign:1 copy:/<>/resolver-m2vJVD/apt_archive ./ InRelease Get:2 copy:/<>/resolver-m2vJVD/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-m2vJVD/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-m2vJVD/apt_archive ./ Sources [246 B] Get:5 copy:/<>/resolver-m2vJVD/apt_archive ./ Packages [563 B] Fetched 2928 B in 0s (263 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install stacks build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.24 perl-modules-5.24 Use 'sudo apt autoremove' to remove them. 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 libbam-dev libbsd0 libcroco3 libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libhts2 libicu57 libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libsparsehash-dev libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-minimal python2.7 python2.7-minimal samtools zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser libmail-box-perl python-doc python-tk python2.7-doc binfmt-support Recommended packages: curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev xml-core libmail-sendmail-perl The following packages will be REMOVED: pkg-create-dbgsym* 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 libbam-dev libbsd0 libcroco3 libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libhts2 libicu57 libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libsparsehash-dev libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-minimal python2.7 python2.7-minimal samtools sbuild-build-depends-stacks-dummy zlib1g-dev 0 upgraded, 44 newly installed, 1 to remove and 0 not upgraded. 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Processing triggers for libc-bin (2.24-12ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-87-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.29-1ubuntu1 dpkg-dev_1.18.24ubuntu1 g++-6_6.4.0-2ubuntu1 gcc-6_6.4.0-2ubuntu1 libc6-dev_2.24-12ubuntu1 libstdc++-6-dev_6.4.0-2ubuntu1 libstdc++6_7.1.0-10ubuntu1 linux-libc-dev_4.11.0-11.16 Package versions: adduser_3.113+nmu3ubuntu5 advancecomp_2.0-1 apt_1.5~beta1 apt-transport-https_1.5~beta1 autoconf_2.69-10 automake_1:1.15-6ubuntu1 autopoint_0.19.8.1-2ubuntu1 autotools-dev_20161112.1 base-files_9.6ubuntu101 base-passwd_3.5.43 bash_4.4-5ubuntu1 binutils_2.29-1ubuntu1 bsdmainutils_9.0.12+nmu1ubuntu1 bsdutils_1:2.30.1-0ubuntu1 build-essential_12.1ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20161130+nmu1 coreutils_8.26-3ubuntu3 cpp_4:6.3.0-2ubuntu2 cpp-6_6.4.0-2ubuntu1 dash_0.5.8-2.3ubuntu1 debconf_1.5.63 debhelper_10.6.4ubuntu1 debianutils_4.8.1.1 dh-autoreconf_14 dh-strip-nondeterminism_0.038-1 diffutils_1:3.5-3 dmsetup_2:1.02.137-2ubuntu2 dpkg_1.18.24ubuntu1 dpkg-dev_1.18.24ubuntu1 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 fakeroot_1.21-1ubuntu2 file_1:5.30-1 findutils_4.6.0+git+20170606-3 g++_4:6.3.0-2ubuntu2 g++-6_6.4.0-2ubuntu1 gcc_4:6.3.0-2ubuntu2 gcc-6_6.4.0-2ubuntu1 gcc-6-base_6.4.0-2ubuntu1 gcc-7-base_7.1.0-10ubuntu1 gettext_0.19.8.1-2ubuntu1 gettext-base_0.19.8.1-2ubuntu1 gnupg_2.1.15-1ubuntu7 gnupg-agent_2.1.15-1ubuntu7 gpgv_2.1.15-1ubuntu7 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5ubuntu1 hostname_3.18 init_1.49 init-system-helpers_1.49 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.11.0-2ubuntu10 libapt-pkg5.0_1.5~beta1 libarchive-zip-perl_1.59-1 libasan3_6.4.0-2ubuntu1 libasn1-8-heimdal_7.4.0.dfsg.1-2 libassuan0_2.4.3-2 libatomic1_7.1.0-10ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.7.7-1ubuntu1 libaudit1_1:2.7.7-1ubuntu1 libbam-dev_0.1.19-2 libblkid1_2.30.1-0ubuntu1 libbsd0_0.8.6-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-12ubuntu1 libc-dev-bin_2.24-12ubuntu1 libc6_2.24-12ubuntu1 libc6-dev_2.24-12ubuntu1 libcap-ng0_0.7.7-3build1 libcap2_1:2.25-1 libcc1-0_7.1.0-10ubuntu1 libcomerr2_1.43.4-2 libcroco3_0.6.12-1 libcryptsetup4_2:1.7.2-0ubuntu1 libcurl3-gnutls_7.52.1-5ubuntu1 libdb5.3_5.3.28-13 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.137-2ubuntu2 libdpkg-perl_1.18.24ubuntu1 libexpat1_2.2.2-2 libfakeroot_1.21-1ubuntu2 libfdisk1_2.30.1-0ubuntu1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.038-1 libgcc-6-dev_6.4.0-2ubuntu1 libgcc1_1:7.1.0-10ubuntu1 libgcrypt20_1.7.8-2 libgdbm3_1.8.3-14 libglib2.0-0_2.53.4-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.8-6ubuntu1 libgomp1_7.1.0-10ubuntu1 libgpg-error0_1.27-3 libgssapi-krb5-2_1.15.1-2 libgssapi3-heimdal_7.4.0.dfsg.1-2 libhcrypto4-heimdal_7.4.0.dfsg.1-2 libheimbase1-heimdal_7.4.0.dfsg.1-2 libheimntlm0-heimdal_7.4.0.dfsg.1-2 libhogweed4_3.3-1 libhts2_1.4.1-5 libhx509-5-heimdal_7.4.0.dfsg.1-2 libicu57_57.1-6 libidn11_1.33-1 libidn2-0_2.0.2-1 libip4tc0_1.6.1-2ubuntu1 libisl15_0.18-1 libitm1_7.1.0-10ubuntu1 libk5crypto3_1.15.1-2 libkeyutils1_1.5.9-9ubuntu1 libkmod2_24-1ubuntu1 libkrb5-26-heimdal_7.4.0.dfsg.1-2 libkrb5-3_1.15.1-2 libkrb5support0_1.15.1-2 libksba8_1.3.5-2 libldap-2.4-2_2.4.45+dfsg-1ubuntu1 libldap-common_2.4.45+dfsg-1ubuntu1 liblockfile-bin_1.14-1 liblockfile1_1.14-1 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.30-1 libmagic1_1:5.30-1 libmount1_2.30.1-0ubuntu1 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.3-1 libnpth0_1.5-2 libp11-kit0_0.23.7-3 libpam-modules_1.1.8-3.2ubuntu3 libpam-modules-bin_1.1.8-3.2ubuntu3 libpam-runtime_1.1.8-3.2ubuntu3 libpam0g_1.1.8-3.2ubuntu3 libpcre3_2:8.39-4 libperl5.24_5.24.1-7ubuntu1 libperl5.26_5.26.0-4 libpipeline1_1.4.2-1 libpng16-16_1.6.30-2 libprocps6_2:3.3.12-1ubuntu2 libpsl5_0.17.0-5 libpython-stdlib_2.7.13-2 libpython2.7-minimal_2.7.13-4 libpython2.7-stdlib_2.7.13-4 libreadline7_7.0-0ubuntu2 libroken18-heimdal_7.4.0.dfsg.1-2 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-2ubuntu1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-2ubuntu1 libseccomp2_2.3.1-2.1ubuntu1 libselinux1_2.6-3build1 libsemanage-common_2.6-2build1 libsemanage1_2.6-2build1 libsepol1_2.6-2 libsigsegv2_2.11-1 libslang2_2.3.1-5ubuntu1 libsmartcols1_2.30.1-0ubuntu1 libsparsehash-dev_2.0.2-1 libsqlite3-0_3.19.3-3 libss2_1.43.4-2 libssl1.0.0_1.0.2g-1ubuntu13 libstdc++-6-dev_6.4.0-2ubuntu1 libstdc++6_7.1.0-10ubuntu1 libsystemd0_234-2ubuntu1 libtasn1-6_4.12-2.1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libubsan0_7.1.0-10ubuntu1 libudev1_234-2ubuntu1 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-31 libustr-1.0-1_1.0.4-6 libuuid1_2.30.1-0ubuntu1 libwind0-heimdal_7.4.0.dfsg.1-2 libxml2_2.9.4+dfsg1-3build1 linux-libc-dev_4.11.0-11.16 lockfile-progs_0.1.17build1 login_1:4.2-3.2ubuntu2 lsb-base_9.20160110ubuntu5 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17ubuntu2 mime-support_3.60ubuntu1 mount_2.30.1-0ubuntu1 multiarch-support_2.24-12ubuntu1 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 openssl_1.0.2g-1ubuntu13 optipng_0.7.6-1build1 passwd_1:4.2-3.2ubuntu2 patch_2.7.5-1build1 perl_5.26.0-4 perl-base_5.26.0-4 perl-modules-5.24_5.24.1-7ubuntu1 perl-modules-5.26_5.26.0-4 pinentry-curses_1.0.0-2 pkgbinarymangler_131 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-1ubuntu2 python_2.7.13-2 python-minimal_2.7.13-2 python2.7_2.7.13-4 python2.7-minimal_2.7.13-4 readline-common_7.0-0ubuntu2 samtools_1.4.1-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-stacks-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9+nmu1 systemd_234-2ubuntu1 systemd-sysv_234-2ubuntu1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tar_1.29b-2 tzdata_2017b-2 ubuntu-keyring_2016.10.27 util-linux_2.30.1-0ubuntu1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu1 zlib1g-dev_1:1.2.11.dfsg-0ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Jul 29 17:42:52 2017 UTC gpgv: using RSA key gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./stacks_1.46-1build1.dsc dpkg-source: info: extracting stacks in stacks-1.46 dpkg-source: info: unpacking stacks_1.46.orig.tar.gz dpkg-source: info: unpacking stacks_1.46-1build1.debian.tar.xz dpkg-source: info: applying constants.php.patch dpkg-source: info: applying email-settings.patch dpkg-source: info: applying script-exe-paths 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.UTF-8 LC_ALL=C.UTF-8 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: info: source package stacks dpkg-buildpackage: info: source version 1.46-1build1 dpkg-buildpackage: info: source distribution artful dpkg-source --before-build stacks-1.46 dpkg-buildpackage: info: host architecture ppc64el fakeroot debian/rules clean dh clean --with python2 dh_testdir dh_auto_clean dh_autoreconf_clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -f ./constants.php make[1]: Leaving directory '/<>' debian/rules build-arch dh build-arch --with python2 dh_testdir -a dh_update_autotools_config -a dh_autoreconf -a parallel-tests: installing 'config/test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- --enable-sparsehash --enable-bam \ --with-bam-include-path=/usr/include/samtools \ --with-bam-lib-path=/usr/lib ./configure --build=powerpc64le-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/powerpc64le-linux-gnu --libexecdir=\${prefix}/lib/powerpc64le-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --enable-sparsehash --enable-bam --with-bam-include-path=/usr/include/samtools --with-bam-lib-path=/usr/lib configure: WARNING: unrecognized options: --disable-maintainer-mode, --with-bam-include-path, --with-bam-lib-path 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 g++... g++ 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 g++ accepts -g... yes checking for style of include used by make... GNU checking dependency style of g++... none checking for gcc... gcc 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 dependency style of gcc... none checking whether g++ supports C++11 features by default... yes checking for omp_set_num_threads in -lgomp... yes checking for gzread in -lz... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking how to run the C preprocessor... gcc -E 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 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 for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for gcc option to support OpenMP... -fopenmp checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking whether closedir returns void... no checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for functional regular expressions... yes checking for gawk... (cached) mawk checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode, --with-bam-include-path, --with-bam-lib-path make[1]: Leaving directory '/<>' dh_auto_build -a make -j4 make[1]: Entering directory '/<>' make all-recursive make[2]: Entering directory '/<>' Making all in htslib make[3]: Entering directory '/<>/htslib' echo '/* Empty config.h generated by Makefile */' > config.h echo '#define HTS_VERSION "1.3.1"' > version.h gcc -g -Wall -O2 -I. -c -o kfunc.o kfunc.c gcc -g -Wall -O2 -I. -c -o knetfile.o knetfile.c gcc -g -Wall -O2 -I. -c -o kstring.o kstring.c gcc -g -Wall -O2 -I. -c -o bgzf.o bgzf.c gcc -g -Wall -O2 -I. -c -o faidx.o faidx.c gcc -g -Wall -O2 -I. -c -o hfile.o hfile.c gcc -g -Wall -O2 -I. -c -o hfile_net.o hfile_net.c gcc -g -Wall -O2 -I. -c -o hts.o hts.c gcc -g -Wall -O2 -I. -c -o md5.o md5.c gcc -g -Wall -O2 -I. -c -o regidx.o regidx.c gcc -g -Wall -O2 -I. -c -o sam.o sam.c gcc -g -Wall -O2 -I. -c -o synced_bcf_reader.o synced_bcf_reader.c gcc -g -Wall -O2 -I. -c -o vcf_sweep.o vcf_sweep.c gcc -g -Wall -O2 -I. -c -o tbx.o tbx.c gcc -g -Wall -O2 -I. -c -o vcf.o vcf.c gcc -g -Wall -O2 -I. -c -o vcfutils.o vcfutils.c gcc -g -Wall -O2 -I. -c -o cram/cram_codecs.o cram/cram_codecs.c gcc -g -Wall -O2 -I. -c -o cram/cram_decode.o cram/cram_decode.c gcc -g -Wall -O2 -I. -c -o cram/cram_encode.o cram/cram_encode.c gcc -g -Wall -O2 -I. -c -o cram/cram_external.o cram/cram_external.c gcc -g -Wall -O2 -I. -c -o cram/cram_index.o cram/cram_index.c gcc -g -Wall -O2 -I. -c -o cram/cram_io.o cram/cram_io.c gcc -g -Wall -O2 -I. -c -o cram/cram_samtools.o cram/cram_samtools.c gcc -g -Wall -O2 -I. -c -o cram/cram_stats.o cram/cram_stats.c gcc -g -Wall -O2 -I. -c -o cram/files.o cram/files.c gcc -g -Wall -O2 -I. -c -o cram/mFILE.o cram/mFILE.c gcc -g -Wall -O2 -I. -c -o cram/open_trace_file.o cram/open_trace_file.c gcc -g -Wall -O2 -I. -c -o cram/pooled_alloc.o cram/pooled_alloc.c gcc -g -Wall -O2 -I. -c -o cram/rANS_static.o cram/rANS_static.c gcc -g -Wall -O2 -I. -c -o cram/sam_header.o cram/sam_header.c gcc -g -Wall -O2 -I. -c -o cram/string_alloc.o cram/string_alloc.c gcc -g -Wall -O2 -I. -c -o cram/thread_pool.o cram/thread_pool.c gcc -g -Wall -O2 -I. -c -o cram/vlen.o cram/vlen.c gcc -g -Wall -O2 -I. -c -o cram/zfio.o cram/zfio.c ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o md5.o regidx.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o ranlib libhts.a make[3]: Leaving directory '/<>/htslib' Making all in . make[3]: Entering directory '/<>' g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-ustacks.o `test -f 'src/ustacks.cc' || echo './'`src/ustacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-mstack.o `test -f 'src/mstack.cc' || echo './'`src/mstack.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-mst.o `test -f 'src/mst.cc' || echo './'`src/mst.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-cmb.o `test -f 'src/cmb.cc' || echo './'`src/cmb.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-models.o `test -f 'src/models.cc' || echo './'`src/models.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-kmers.o `test -f 'src/kmers.cc' || echo './'`src/kmers.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-pstacks.o `test -f 'src/pstacks.cc' || echo './'`src/pstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-mstack.o `test -f 'src/mstack.cc' || echo './'`src/mstack.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-log_utils.o `test -f 'src/log_utils.cc' || echo './'`src/log_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-models.o `test -f 'src/models.cc' || echo './'`src/models.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/pstacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-estacks.o `test -f 'src/estacks.cc' || echo './'`src/estacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-mstack.o `test -f 'src/mstack.cc' || echo './'`src/mstack.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-models.o `test -f 'src/models.cc' || echo './'`src/models.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/estacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-cstacks.o `test -f 'src/cstacks.cc' || echo './'`src/cstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-locus.o `test -f 'src/locus.cc' || echo './'`src/locus.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-kmers.o `test -f 'src/kmers.cc' || echo './'`src/kmers.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks-MetaPopInfo.o `test -f 'src/MetaPopInfo.cc' || echo './'`src/MetaPopInfo.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-sstacks.o `test -f 'src/sstacks.cc' || echo './'`src/sstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-locus.o `test -f 'src/locus.cc' || echo './'`src/locus.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-kmers.o `test -f 'src/kmers.cc' || echo './'`src/kmers.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-catalog_utils.o `test -f 'src/catalog_utils.cc' || echo './'`src/catalog_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks-MetaPopInfo.o `test -f 'src/MetaPopInfo.cc' || echo './'`src/MetaPopInfo.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-rxstacks.o `test -f 'src/rxstacks.cc' || echo './'`src/rxstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-locus.o `test -f 'src/locus.cc' || echo './'`src/locus.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-DNANSeq.o `test -f 'src/DNANSeq.cc' || echo './'`src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-DNASeq.o `test -f 'src/DNASeq.cc' || echo './'`src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-mst.o `test -f 'src/mst.cc' || echo './'`src/mst.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-models.o `test -f 'src/models.cc' || echo './'`src/models.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-catalog_utils.o `test -f 'src/catalog_utils.cc' || echo './'`src/catalog_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/rxstacks-MetaPopInfo.o `test -f 'src/MetaPopInfo.cc' || echo './'`src/MetaPopInfo.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/hstacks-hstacks.o `test -f 'src/hstacks.cc' || echo './'`src/hstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/hstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/hstacks-stacks.o `test -f 'src/stacks.cc' || echo './'`src/stacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/hstacks-locus.o `test -f 'src/locus.cc' || echo './'`src/locus.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong 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'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/hstacks-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags-process_radtags.o `test -f 'src/process_radtags.cc' || echo './'`src/process_radtags.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc src/process_radtags.cc: In function ‘int print_results(int, char**, std::vector&, std::map, std::map, long int> >&, std::map, long int> >&)’: src/process_radtags.cc:767:45: warning: ignoring return value of ‘char* realpath(const char*, char*)’, declared with attribute warn_unused_result [-Wunused-result] realpath(in_path_1.c_str(), abspath); ^ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags-log_utils.o `test -f 'src/log_utils.cc' || echo './'`src/log_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags-write.o `test -f 'src/write.cc' || echo './'`src/write.cc g++ -DHAVE_CONFIG_H 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'./'`src/renz.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_shortreads-process_shortreads.o `test -f 'src/process_shortreads.cc' || echo './'`src/process_shortreads.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_shortreads-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_shortreads-clean.o `test -f 'src/clean.cc' || echo './'`src/clean.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat 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-Werror=format-security -c -o src/populations-aln_utils.o `test -f 'src/aln_utils.cc' || echo './'`src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-genotype_dictionaries.o `test -f 'src/genotype_dictionaries.cc' || echo './'`src/genotype_dictionaries.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-renz.o `test -f 'src/renz.cc' || echo './'`src/renz.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-export_formats.o `test -f 'src/export_formats.cc' || echo './'`src/export_formats.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-MetaPopInfo.o `test -f 'src/MetaPopInfo.cc' || echo './'`src/MetaPopInfo.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations-Vcf.o `test -f 'src/Vcf.cc' || echo './'`src/Vcf.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-phasedstacks.o `test -f 'src/phasedstacks.cc' || echo './'`src/phasedstacks.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-constants.o `test -f 'src/constants.cc' || echo './'`src/constants.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-locus.o `test -f 'src/locus.cc' || echo './'`src/locus.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-input.o `test -f 'src/input.cc' || echo './'`src/input.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-sql_utilities.o `test -f 'src/sql_utilities.cc' || echo './'`src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-log_utils.o `test -f 'src/log_utils.cc' || echo './'`src/log_utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-utils.o `test -f 'src/utils.cc' || echo './'`src/utils.cc g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks-catalog_utils.o `test -f 'src/catalog_utils.cc' || echo './'`src/catalog_utils.cc g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o ustacks src/ustacks-ustacks.o src/ustacks-stacks.o src/ustacks-constants.o src/ustacks-mstack.o src/ustacks-mst.o src/ustacks-cmb.o src/ustacks-DNASeq.o src/ustacks-DNANSeq.o src/ustacks-models.o src/ustacks-utils.o src/ustacks-kmers.o src/ustacks-aln_utils.o src/ustacks-input.o -lz -lgomp g++ -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o pstacks src/pstacks-pstacks.o src/pstacks-stacks.o src/pstacks-constants.o src/pstacks-mstack.o src/pstacks-log_utils.o src/pstacks-DNANSeq.o src/pstacks-DNASeq.o src/pstacks-models.o src/pstacks-utils.o src/pstacks-aln_utils.o src/pstacks-input.o ./htslib/libhts.a -lz -lgomp g++ -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o estacks src/estacks-estacks.o src/estacks-stacks.o src/estacks-constants.o src/estacks-mstack.o src/estacks-models.o src/estacks-utils.o src/estacks-aln_utils.o src/estacks-DNASeq.o src/estacks-DNANSeq.o src/estacks-input.o ./htslib/libhts.a -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o cstacks src/cstacks-cstacks.o src/cstacks-constants.o src/cstacks-stacks.o src/cstacks-locus.o src/cstacks-kmers.o src/cstacks-utils.o src/cstacks-aln_utils.o src/cstacks-DNASeq.o src/cstacks-DNANSeq.o src/cstacks-input.o src/cstacks-sql_utilities.o src/cstacks-MetaPopInfo.o -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sstacks src/sstacks-sstacks.o src/sstacks-constants.o src/sstacks-stacks.o src/sstacks-locus.o src/sstacks-kmers.o src/sstacks-aln_utils.o src/sstacks-DNASeq.o src/sstacks-DNANSeq.o src/sstacks-utils.o src/sstacks-input.o src/sstacks-sql_utilities.o src/sstacks-catalog_utils.o src/sstacks-MetaPopInfo.o -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o rxstacks src/rxstacks-rxstacks.o src/rxstacks-constants.o src/rxstacks-stacks.o src/rxstacks-locus.o src/rxstacks-DNANSeq.o src/rxstacks-DNASeq.o src/rxstacks-mst.o src/rxstacks-models.o src/rxstacks-aln_utils.o src/rxstacks-utils.o src/rxstacks-input.o src/rxstacks-sql_utilities.o src/rxstacks-catalog_utils.o src/rxstacks-MetaPopInfo.o -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o hstacks src/hstacks-hstacks.o src/hstacks-constants.o src/hstacks-stacks.o src/hstacks-locus.o src/hstacks-kmers.o src/hstacks-DNASeq.o src/hstacks-DNANSeq.o src/hstacks-utils.o src/hstacks-input.o src/hstacks-sql_utilities.o -lz -lgomp g++ -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o process_radtags src/process_radtags-process_radtags.o src/process_radtags-constants.o src/process_radtags-utils.o src/process_radtags-log_utils.o src/process_radtags-write.o src/process_radtags-clean.o src/process_radtags-file_io.o src/process_radtags-input.o src/process_radtags-renz.o ./htslib/libhts.a -lz -lgomp g++ -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o process_shortreads src/process_shortreads-process_shortreads.o src/process_shortreads-constants.o src/process_shortreads-clean.o src/process_shortreads-file_io.o src/process_shortreads-utils.o src/process_shortreads-log_utils.o src/process_shortreads-write.o src/process_shortreads-kmers.o src/process_shortreads-input.o ./htslib/libhts.a -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o kmer_filter src/kmer_filter-kmer_filter.o src/kmer_filter-constants.o src/kmer_filter-utils.o src/kmer_filter-write.o src/kmer_filter-kmers.o src/kmer_filter-input.o -lz -lgomp g++ -fopenmp -I./htslib/htslib -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o clone_filter src/clone_filter-clone_filter.o src/clone_filter-constants.o src/clone_filter-kmers.o src/clone_filter-utils.o src/clone_filter-write.o src/clone_filter-clean.o src/clone_filter-file_io.o src/clone_filter-input.o ./htslib/libhts.a -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o genotypes src/genotypes-genotypes.o src/genotypes-constants.o src/genotypes-utils.o src/genotypes-catalog_utils.o src/genotypes-log_utils.o src/genotypes-stacks.o src/genotypes-locus.o src/genotypes-DNASeq.o src/genotypes-DNANSeq.o src/genotypes-aln_utils.o src/genotypes-genotype_dictionaries.o src/genotypes-input.o src/genotypes-sql_utilities.o src/genotypes-renz.o src/genotypes-MetaPopInfo.o -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o populations src/populations-populations.o src/populations-constants.o src/populations-utils.o src/populations-catalog_utils.o src/populations-log_utils.o src/populations-stacks.o src/populations-locus.o src/populations-DNASeq.o src/populations-DNANSeq.o src/populations-aln_utils.o src/populations-genotype_dictionaries.o src/populations-input.o src/populations-sql_utilities.o src/populations-renz.o src/populations-export_formats.o src/populations-MetaPopInfo.o src/populations-Vcf.o -lz -lgomp g++ -fopenmp -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o phasedstacks src/phasedstacks-phasedstacks.o src/phasedstacks-constants.o src/phasedstacks-locus.o src/phasedstacks-input.o src/phasedstacks-sql_utilities.o src/phasedstacks-log_utils.o src/phasedstacks-utils.o src/phasedstacks-catalog_utils.o -lz -lgomp make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' #ln -s /usr/share/automake-1.14/tap-driver.sh tests/tap-driver.sh #dh_auto_test # Does not work even after this trick. See # https://groups.google.com/forum/#!msg/stacks-users/TA2tMEqb4Mg/pQy4fUCYi9kJ true make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --with python2 dh_testroot -a dh_prep -a dh_auto_install -a make -j4 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in htslib make[2]: Entering directory '/<>/htslib' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/htslib' Making install in . make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/mkdir -p '/<>/debian/tmp/usr/share/stacks' /usr/bin/install -c ustacks pstacks estacks cstacks sstacks rxstacks hstacks process_radtags process_shortreads kmer_filter clone_filter genotypes populations phasedstacks '/<>/debian/tmp/usr/bin' /usr/bin/install -c scripts/denovo_map.pl scripts/ref_map.pl scripts/export_sql.pl scripts/sort_read_pairs.pl scripts/exec_velvet.pl scripts/load_sequences.pl scripts/index_radtags.pl scripts/load_radtags.pl scripts/stacks_export_notify.pl scripts/integrate_alignments.py scripts/count_fixed_catalog_snps.py '/<>/debian/tmp/usr/bin' /bin/mkdir -p '/<>/debian/tmp/usr/share/stacks/sql' /usr/bin/install -c -m 644 sql/mysql.cnf.dist sql/catalog_index.sql sql/stacks.sql sql/tag_index.sql sql/chr_index.sql '/<>/debian/tmp/usr/share/stacks/sql' /bin/mkdir -p '/<>/debian/tmp/usr/share/stacks/php' /usr/bin/install -c -m 644 php/CatalogClass.php php/annotate_marker.php php/constants.php.dist php/index.php php/tags.php php/tag.php php/Locus.php php/catalog.php php/correct_genotypes.php php/correct_genotype.php php/export_batch.php php/last_modified.php php/version.php php/catalog_genotypes.php php/db_functions.php php/header.php php/samples.php php/stacks_functions.php php/view_sequence.php php/sequence_blast.php php/pop_view.php php/sumstat_view.php php/hapstat_view.php php/fst_view.php php/phist_view.php php/stack_view.php php/population_view.js php/ajax.js php/annotate.js php/stacks.js php/export.js php/stacks.css '/<>/debian/tmp/usr/share/stacks/php' /bin/mkdir -p '/<>/debian/tmp/usr/share/stacks/php/images' /usr/bin/install -c -m 644 php/images/caret-d.png php/images/caret-u.png php/images/excel_icon.png php/images/l-arrow-disabled.png php/images/l-arrow.png php/images/r-arrow-disabled.png php/images/r-arrow.png php/images/stacks_bg.png php/images/stacks_logo_rev_small.png '/<>/debian/tmp/usr/share/stacks/php/images' make install-data-hook make[4]: Entering directory '/<>' sed -e 's,_VERSION_,1.46,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/denovo_map.pl > /<>/debian/tmp/usr/bin/denovo_map.pl.subst mv /<>/debian/tmp/usr/bin/denovo_map.pl.subst /<>/debian/tmp/usr/bin/denovo_map.pl chmod +x /<>/debian/tmp/usr/bin/denovo_map.pl sed -e 's,_VERSION_,1.46,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/ref_map.pl > /<>/debian/tmp/usr/bin/ref_map.pl.subst mv /<>/debian/tmp/usr/bin/ref_map.pl.subst /<>/debian/tmp/usr/bin/ref_map.pl chmod +x /<>/debian/tmp/usr/bin/ref_map.pl sed -e 's,_VERSION_,1.46,' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/export_sql.pl > /<>/debian/tmp/usr/bin/export_sql.pl.subst mv /<>/debian/tmp/usr/bin/export_sql.pl.subst /<>/debian/tmp/usr/bin/export_sql.pl chmod +x /<>/debian/tmp/usr/bin/export_sql.pl sed -e 's,_VERSION_,1.46,' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/index_radtags.pl > /<>/debian/tmp/usr/bin/index_radtags.pl.subst mv /<>/debian/tmp/usr/bin/index_radtags.pl.subst /<>/debian/tmp/usr/bin/index_radtags.pl chmod +x /<>/debian/tmp/usr/bin/index_radtags.pl sed -e 's,_VERSION_,1.46,' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/load_radtags.pl > /<>/debian/tmp/usr/bin/load_radtags.pl.subst mv /<>/debian/tmp/usr/bin/load_radtags.pl.subst /<>/debian/tmp/usr/bin/load_radtags.pl chmod +x /<>/debian/tmp/usr/bin/load_radtags.pl sed -e 's,_VERSION_,1.46,' /<>/debian/tmp/usr/bin/sort_read_pairs.pl > /<>/debian/tmp/usr/bin/sort_read_pairs.pl.subst mv /<>/debian/tmp/usr/bin/sort_read_pairs.pl.subst /<>/debian/tmp/usr/bin/sort_read_pairs.pl chmod +x /<>/debian/tmp/usr/bin/sort_read_pairs.pl sed -e 's,_VERSION_,1.46,' /<>/debian/tmp/usr/bin/exec_velvet.pl > /<>/debian/tmp/usr/bin/exec_velvet.pl.subst mv /<>/debian/tmp/usr/bin/exec_velvet.pl.subst /<>/debian/tmp/usr/bin/exec_velvet.pl chmod +x /<>/debian/tmp/usr/bin/exec_velvet.pl sed -e 's,_VERSION_,1.46,' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/debian/tmp/usr/bin/load_sequences.pl > /<>/debian/tmp/usr/bin/load_sequences.pl.subst mv /<>/debian/tmp/usr/bin/load_sequences.pl.subst /<>/debian/tmp/usr/bin/load_sequences.pl chmod +x /<>/debian/tmp/usr/bin/load_sequences.pl sed -e 's,_VERSION_,1.46,' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' \ /<>/debian/tmp/usr/bin/stacks_export_notify.pl > /<>/debian/tmp/usr/bin/stacks_export_notify.pl.subst mv /<>/debian/tmp/usr/bin/stacks_export_notify.pl.subst /<>/debian/tmp/usr/bin/stacks_export_notify.pl chmod +x /<>/debian/tmp/usr/bin/stacks_export_notify.pl sed -e 's,_PKGDATADIR_,/usr/share/stacks/,g' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' \ /<>/debian/tmp/usr/share/stacks/php/constants.php.dist > /<>/debian/tmp/usr/share/stacks/php/constants.php.dist.subst mv /<>/debian/tmp/usr/share/stacks/php/constants.php.dist.subst /<>/debian/tmp/usr/share/stacks/php/constants.php.dist echo 1.46 > /<>/debian/tmp/usr/share/stacks/php/version.php /bin/bash /<>/config/install-sh -d -m 755 /<>/debian/tmp/usr/share/stacks/php/export make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' cp php/constants.php.dist ./constants.php dh_install # Skip this bit if not building stacks ! cd debian/stacks/usr/lib/stacks/bin || \ for f in *.pl ; do \ ln -s "$f" "`basename $f .pl`" ; \ done # Skip this bit if not building stacks-web # Note - directory perms will be set in postinst dh_installdirs -pstacks-web /var/lib/stacks/export dh_installdirs: No packages to build. Architecture mismatch: ppc64el, want: all any if [ -e debian/stacks-web/usr/share/stacks/php ] ; then \ rmdir debian/stacks-web/usr/share/stacks/php/export ; \ ln -s /var/lib/stacks/export \ debian/stacks-web/usr/share/stacks/php/export ; \ fi make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_python2 -a W: dh_python2:479: Please add dh-python package to Build-Depends dh_perl -a debian/rules override_dh_link make[1]: Entering directory '/<>' dh_link mkdir -p debian/stacks/usr/lib/debian-med/bin cd debian/stacks/usr/lib/debian-med/bin && \ for f in `ls /<>/debian/stacks/usr/lib/stacks/bin` ; do \ ln -s ../../stacks/bin/$f ; \ done make[1]: Leaving directory '/<>' dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package stacks: unused substitution variable ${perl:Depends} dpkg-gencontrol: warning: package stacks: unused substitution variable ${perl:Depends} dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 INFO: pkgstriptranslations version 131 pkgstriptranslations: processing stacks (in debian/stacks); do_strip: , oemstrip: pkgstriptranslations: processing stacks-dbgsym (in debian/.debhelper/stacks/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/stacks/dbgsym-root/DEBIAN/control, package stacks-dbgsym, directory debian/.debhelper/stacks/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package stacks-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'stacks-dbgsym' in 'debian/.debhelper/scratch-space/build-stacks/stacks-dbgsym_1.46-1build1_ppc64el.deb'. pkgstripfiles: processing control file: debian/stacks/DEBIAN/control, package stacks, directory debian/stacks pkgstripfiles: Truncating usr/share/doc/stacks/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package stacks ... pkgstripfiles: No PNG files. dpkg-deb: building package 'stacks' in '../stacks_1.46-1build1_ppc64el.deb'. Renaming stacks-dbgsym_1.46-1build1_ppc64el.deb to stacks-dbgsym_1.46-1build1_ppc64el.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../stacks_1.46-1build1_ppc64el.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build stacks-1.46 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20170729-1749 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ stacks_1.46-1build1_ppc64el.changes: ------------------------------------ Format: 1.8 Date: Sat, 29 Jul 2017 19:42:50 +0200 Source: stacks Binary: stacks stacks-web Architecture: ppc64el Version: 1.46-1build1 Distribution: artful-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Gianfranco Costamagna Description: stacks - pipeline for building loci from short-read DNA sequences stacks-web - web interface for displaying loci from short-read sequences Changes: stacks (1.46-1build1) artful; urgency=medium . * Rebuild against new samtools. Checksums-Sha1: 32d0e2008d556238c1bcd5c268491c8336c5d535 27306654 stacks-dbgsym_1.46-1build1_ppc64el.ddeb 247009ecc32ed8dbf807d3395f5308069b2926bd 6327 stacks_1.46-1build1_ppc64el.buildinfo 108baf3a982aa0b7f9d48840d36ce7d4519f180c 1181020 stacks_1.46-1build1_ppc64el.deb Checksums-Sha256: fdf815aa39a1064c967a422f54c717657b3c0bc65cc6205e2daee99dc77a4f5b 27306654 stacks-dbgsym_1.46-1build1_ppc64el.ddeb e54ad69f08f7e55bb9b1a7da8560e3e335500c481b11aae7572a45be53045c5f 6327 stacks_1.46-1build1_ppc64el.buildinfo 152aa46b4ba6dd6e17e3e47cc7550532249a8e7a6a04815d99b04b9e10468da6 1181020 stacks_1.46-1build1_ppc64el.deb Files: 89216a1078bc46b1538efc1c3923869f 27306654 debug extra stacks-dbgsym_1.46-1build1_ppc64el.ddeb 0860145ba7b03848a2c1ac000e6f3ed7 6327 science optional stacks_1.46-1build1_ppc64el.buildinfo 3edfb7f2bf7dd6a356ecc49a2cdccf09 1181020 science optional stacks_1.46-1build1_ppc64el.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ stacks_1.46-1build1_ppc64el.deb ------------------------------- new debian package, version 2.0. size 1181020 bytes: control archive=1936 bytes. 1014 bytes, 19 lines control 2012 bytes, 30 lines md5sums 171 bytes, 9 lines * postinst #!/bin/sh 249 bytes, 14 lines * prerm #!/bin/sh Package: stacks Version: 1.46-1build1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 8960 Depends: libc6 (>= 2.17), libgcc1 (>= 1:3.4.4), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.6), python:any (>= 2.6.6-7~), samtools, libdbi-perl Recommends: libspreadsheet-writeexcel-perl Section: science Priority: optional Homepage: http://creskolab.uoregon.edu/stacks/ Description: pipeline for building loci from short-read DNA sequences Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography. . Note that this package installs Stacks such that all commands must be run as: $ stacks drwxr-xr-x root/root 0 2017-07-29 17:42 ./ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/bin/ -rwxr-xr-x root/root 771 2017-06-24 06:20 ./usr/bin/stacks drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/lib/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/ lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/clone_filter -> ../../stacks/bin/clone_filter lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/count_fixed_catalog_snps.py -> ../../stacks/bin/count_fixed_catalog_snps.py lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/cstacks -> ../../stacks/bin/cstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/denovo_map -> ../../stacks/bin/denovo_map lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/denovo_map.pl -> ../../stacks/bin/denovo_map.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/estacks -> ../../stacks/bin/estacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/exec_velvet -> ../../stacks/bin/exec_velvet lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/exec_velvet.pl -> ../../stacks/bin/exec_velvet.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/export_sql -> ../../stacks/bin/export_sql lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/export_sql.pl -> ../../stacks/bin/export_sql.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/genotypes -> ../../stacks/bin/genotypes lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/hstacks -> ../../stacks/bin/hstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/index_radtags -> ../../stacks/bin/index_radtags lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/index_radtags.pl -> ../../stacks/bin/index_radtags.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/integrate_alignments.py -> ../../stacks/bin/integrate_alignments.py lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/kmer_filter -> ../../stacks/bin/kmer_filter lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/load_radtags -> ../../stacks/bin/load_radtags lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/load_radtags.pl -> ../../stacks/bin/load_radtags.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/load_sequences -> ../../stacks/bin/load_sequences lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/load_sequences.pl -> ../../stacks/bin/load_sequences.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/phasedstacks -> ../../stacks/bin/phasedstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/populations -> ../../stacks/bin/populations lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/process_radtags -> ../../stacks/bin/process_radtags lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/process_shortreads -> ../../stacks/bin/process_shortreads lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/pstacks -> ../../stacks/bin/pstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/ref_map -> ../../stacks/bin/ref_map lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/ref_map.pl -> ../../stacks/bin/ref_map.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/rxstacks -> ../../stacks/bin/rxstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/sort_read_pairs -> ../../stacks/bin/sort_read_pairs lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/sort_read_pairs.pl -> ../../stacks/bin/sort_read_pairs.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/sstacks -> ../../stacks/bin/sstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/stacks_export_notify -> ../../stacks/bin/stacks_export_notify lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/stacks_export_notify.pl -> ../../stacks/bin/stacks_export_notify.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/debian-med/bin/ustacks -> ../../stacks/bin/ustacks drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/lib/stacks/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/ -rwxr-xr-x root/root 921456 2017-07-29 17:42 ./usr/lib/stacks/bin/clone_filter -rwxr-xr-x root/root 8698 2017-07-29 17:42 ./usr/lib/stacks/bin/count_fixed_catalog_snps.py -rwxr-xr-x root/root 462576 2017-07-29 17:42 ./usr/lib/stacks/bin/cstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/denovo_map -> denovo_map.pl -rwxr-xr-x root/root 33991 2017-07-29 17:42 ./usr/lib/stacks/bin/denovo_map.pl -rwxr-xr-x root/root 790112 2017-07-29 17:42 ./usr/lib/stacks/bin/estacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/exec_velvet -> exec_velvet.pl -rwxr-xr-x root/root 8919 2017-07-29 17:42 ./usr/lib/stacks/bin/exec_velvet.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/export_sql -> export_sql.pl -rwxr-xr-x root/root 31818 2017-07-29 17:42 ./usr/lib/stacks/bin/export_sql.pl -rwxr-xr-x root/root 594744 2017-07-29 17:42 ./usr/lib/stacks/bin/genotypes -rwxr-xr-x root/root 331224 2017-07-29 17:42 ./usr/lib/stacks/bin/hstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/index_radtags -> index_radtags.pl -rwxr-xr-x root/root 20389 2017-07-29 17:42 ./usr/lib/stacks/bin/index_radtags.pl -rwxr-xr-x root/root 10849 2017-07-29 17:42 ./usr/lib/stacks/bin/integrate_alignments.py -rwxr-xr-x root/root 397200 2017-07-29 17:42 ./usr/lib/stacks/bin/kmer_filter lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/load_radtags -> load_radtags.pl -rwxr-xr-x root/root 15091 2017-07-29 17:42 ./usr/lib/stacks/bin/load_radtags.pl lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/load_sequences -> load_sequences.pl -rwxr-xr-x root/root 6245 2017-07-29 17:42 ./usr/lib/stacks/bin/load_sequences.pl -rwxr-xr-x root/root 331464 2017-07-29 17:42 ./usr/lib/stacks/bin/phasedstacks -rwxr-xr-x root/root 923608 2017-07-29 17:42 ./usr/lib/stacks/bin/populations -rwxr-xr-x root/root 922992 2017-07-29 17:42 ./usr/lib/stacks/bin/process_radtags -rwxr-xr-x root/root 922080 2017-07-29 17:42 ./usr/lib/stacks/bin/process_shortreads -rwxr-xr-x root/root 790296 2017-07-29 17:42 ./usr/lib/stacks/bin/pstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/ref_map -> ref_map.pl -rwxr-xr-x root/root 31575 2017-07-29 17:42 ./usr/lib/stacks/bin/ref_map.pl -rwxr-xr-x root/root 462680 2017-07-29 17:42 ./usr/lib/stacks/bin/rxstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/sort_read_pairs -> sort_read_pairs.pl -rwxr-xr-x root/root 14915 2017-07-29 17:42 ./usr/lib/stacks/bin/sort_read_pairs.pl -rwxr-xr-x root/root 528032 2017-07-29 17:42 ./usr/lib/stacks/bin/sstacks lrwxrwxrwx root/root 0 2017-07-29 17:42 ./usr/lib/stacks/bin/stacks_export_notify -> stacks_export_notify.pl -rwxr-xr-x root/root 6454 2017-07-29 17:42 ./usr/lib/stacks/bin/stacks_export_notify.pl -rwxr-xr-x root/root 528504 2017-07-29 17:42 ./usr/lib/stacks/bin/ustacks drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/share/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/share/doc/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/share/doc/stacks/ -rw-r--r-- root/root 1451 2017-06-24 06:20 ./usr/share/doc/stacks/README.Debian -rw-r--r-- root/root 787 2017-07-29 17:42 ./usr/share/doc/stacks/changelog.Debian.gz -rw-r--r-- root/root 1335 2017-06-24 06:20 ./usr/share/doc/stacks/copyright drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/share/python/ drwxr-xr-x root/root 0 2017-07-29 17:42 ./usr/share/python/runtime.d/ -rwxr-xr-x root/root 122 2017-07-29 17:42 ./usr/share/python/runtime.d/stacks.rtupdate +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build-Space: 528488 Build-Time: 158 Distribution: artful-proposed Host Architecture: ppc64el Install-Time: 11 Job: stacks_1.46-1build1.dsc Machine Architecture: ppc64el Package: stacks Package-Time: 172 Source-Version: 1.46-1build1 Space: 528488 Status: successful Version: 1.46-1build1 -------------------------------------------------------------------------------- Finished at 20170729-1749 Build needed 00:02:52, 528488k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-13170041'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-13170041/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-13170041'] Unmounting chroot for build PACKAGEBUILD-13170041... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-13170041'] Removing build PACKAGEBUILD-13170041