RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux birch 3.8.0 #1 SMP Tue Oct 8 01:20:46 ICT 2013 aarch64 Buildd toolchain package versions: launchpad-buildd_119~APM.12.04.2 python-lpbuildd_119~APM.12.04.2. Syncing the system clock with the buildd NTP service... 16 Dec 14:44:55 ntpdate[12380]: adjust time server 10.211.37.1 offset -0.017226 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-5342724', '/home/buildd/filecache-default/a24bd41060605d4f5aef5746aacf39703b0275a9'] Unpacking chroot for build PACKAGEBUILD-5342724 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-5342724'] Mounting chroot for build PACKAGEBUILD-5342724 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-5342724', 'deb http://ftpmaster.internal/ubuntu trusty main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu trusty-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu trusty-updates main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu trusty-proposed main restricted universe multiverse'] Overriding sources.list in build-PACKAGEBUILD-5342724 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-5342724', 'arm64'] Updating debian chroot for build PACKAGEBUILD-5342724 Ign http://ftpmaster.internal trusty InRelease Ign http://archive-team.internal trusty InRelease Ign http://ftpmaster.internal trusty-security InRelease Ign http://archive-team.internal trusty Release.gpg Ign http://ftpmaster.internal trusty-updates InRelease Hit http://archive-team.internal trusty Release Ign http://ftpmaster.internal trusty-proposed InRelease Ign http://archive-team.internal trusty/main arm64 Packages/DiffIndex Get:1 http://ftpmaster.internal trusty Release.gpg [933 B] Get:2 http://ftpmaster.internal trusty-security Release.gpg [933 B] Get:3 http://ftpmaster.internal trusty-updates Release.gpg [933 B] Get:4 http://ftpmaster.internal trusty-proposed Release.gpg [933 B] Get:5 http://ftpmaster.internal trusty Release [58.5 kB] Ign http://archive-team.internal trusty/main Translation-en Hit http://archive-team.internal trusty/main arm64 Packages Get:6 http://ftpmaster.internal trusty-security Release [58.5 kB] Get:7 http://ftpmaster.internal trusty-updates Release [58.5 kB] Get:8 http://ftpmaster.internal trusty-proposed Release [58.5 kB] Get:9 http://ftpmaster.internal trusty/main arm64 Packages [1167 kB] Get:10 http://ftpmaster.internal trusty/restricted arm64 Packages [14 B] Get:11 http://ftpmaster.internal trusty/universe arm64 Packages [4848 kB] Get:12 http://ftpmaster.internal trusty/multiverse arm64 Packages [103 kB] Get:13 http://ftpmaster.internal trusty/main Translation-en [729 kB] Get:14 http://ftpmaster.internal trusty/multiverse Translation-en [102 kB] Get:15 http://ftpmaster.internal trusty/restricted Translation-en [3433 B] Get:16 http://ftpmaster.internal trusty/universe Translation-en [4001 kB] Get:17 http://ftpmaster.internal trusty-security/main arm64 Packages [14 B] Get:18 http://ftpmaster.internal trusty-security/restricted arm64 Packages [14 B] Get:19 http://ftpmaster.internal trusty-security/universe arm64 Packages [14 B] Get:20 http://ftpmaster.internal trusty-security/multiverse arm64 Packages [14 B] Get:21 http://ftpmaster.internal trusty-security/main Translation-en [14 B] Get:22 http://ftpmaster.internal trusty-security/multiverse Translation-en [14 B] Get:23 http://ftpmaster.internal trusty-security/restricted Translation-en [14 B] Get:24 http://ftpmaster.internal trusty-security/universe Translation-en [14 B] Get:25 http://ftpmaster.internal trusty-updates/main arm64 Packages [14 B] Get:26 http://ftpmaster.internal trusty-updates/restricted arm64 Packages [14 B] Get:27 http://ftpmaster.internal trusty-updates/universe arm64 Packages [14 B] Get:28 http://ftpmaster.internal trusty-updates/multiverse arm64 Packages [14 B] Get:29 http://ftpmaster.internal trusty-updates/main Translation-en [14 B] Get:30 http://ftpmaster.internal trusty-updates/multiverse Translation-en [14 B] Get:31 http://ftpmaster.internal trusty-updates/restricted Translation-en [14 B] Get:32 http://ftpmaster.internal trusty-updates/universe Translation-en [14 B] Get:33 http://ftpmaster.internal trusty-proposed/main arm64 Packages [34.2 kB] Get:34 http://ftpmaster.internal trusty-proposed/restricted arm64 Packages [14 B] Get:35 http://ftpmaster.internal trusty-proposed/universe arm64 Packages [147 kB] Get:36 http://ftpmaster.internal trusty-proposed/multiverse arm64 Packages [3628 B] Get:37 http://ftpmaster.internal trusty-proposed/main Translation-en [28.4 kB] Get:38 http://ftpmaster.internal trusty-proposed/multiverse Translation-en [4922 B] Get:39 http://ftpmaster.internal trusty-proposed/restricted Translation-en [14 B] Get:40 http://ftpmaster.internal trusty-proposed/universe Translation-en [148 kB] Fetched 11.6 MB in 16s (690 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: apt apt-transport-https binutils bsdutils build-essential cpp cpp-4.8 e2fslibs e2fsprogs fakeroot g++ g++-4.8 gcc gcc-4.8 gcc-4.8-base gnupg gpgv hostname klibc-utils libapt-pkg4.12 libatomic1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcomerr2 libdb5.3 libfakeroot libgcc-4.8-dev libgcc1 libgcrypt11 libgmp10 libgomp1 libklibc liblockfile-bin liblockfile1 libmount1 libplymouth2 libsqlite3-0 libss2 libstdc++-4.8-dev libstdc++6 libustr-1.0-1 libuuid1 linux-libc-dev mount multiarch-support perl perl-base perl-modules plymouth sed tar util-linux 55 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 34.5 MB of archives. After this operation, 1999 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libc6-dev arm64 2.18-0ubuntu1 [1672 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libc-dev-bin arm64 2.18-0ubuntu1 [60.3 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main linux-libc-dev arm64 3.12.0-7.15 [702 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libc6 arm64 2.18-0ubuntu1 [4060 kB] Get:5 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libc-bin arm64 2.18-0ubuntu1 [1048 kB] Get:6 http://ftpmaster.internal/ubuntu/ trusty/main libgomp1 arm64 4.8.2-10ubuntu1 [19.0 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.8-base arm64 4.8.2-10ubuntu1 [14.8 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main libgcc1 arm64 1:4.8.2-10ubuntu1 [29.3 kB] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main libatomic1 arm64 4.8.2-10ubuntu1 [6088 B] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main cpp-4.8 arm64 4.8.2-10ubuntu1 [3526 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libstdc++-4.8-dev arm64 4.8.2-10ubuntu1 [1050 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main g++-4.8 arm64 4.8.2-10ubuntu1 [5344 kB] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.8 arm64 4.8.2-10ubuntu1 [3924 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main libgcc-4.8-dev arm64 4.8.2-10ubuntu1 [131 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main libstdc++6 arm64 4.8.2-10ubuntu1 [210 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libgmp10 arm64 2:5.1.2+dfsg-3ubuntu3 [197 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main binutils arm64 2.24-2ubuntu1 [1028 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main e2fslibs arm64 1.42.8-1ubuntu3 [158 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty/main e2fsprogs arm64 1.42.8-1ubuntu3 [616 kB] Get:20 http://ftpmaster.internal/ubuntu/ trusty/main hostname arm64 3.15ubuntu1 [11.0 kB] Get:21 http://ftpmaster.internal/ubuntu/ trusty-proposed/main mount arm64 2.20.1-5.1ubuntu11 [108 kB] Get:22 http://ftpmaster.internal/ubuntu/ trusty-proposed/main perl arm64 5.18.1-5 [2211 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty-proposed/main perl-base arm64 5.18.1-5 [1010 kB] Get:24 http://ftpmaster.internal/ubuntu/ trusty-proposed/main perl-modules all 5.18.1-5 [2680 kB] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main libdb5.3 arm64 5.3.28-3ubuntu1 [536 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main sed arm64 4.2.2-2ubuntu2 [134 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main tar arm64 1.27-4 [169 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty-proposed/main util-linux arm64 2.20.1-5.1ubuntu11 [423 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main libapt-pkg4.12 arm64 0.9.14.1ubuntu1 [574 kB] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main gpgv arm64 1.4.15-1.1ubuntu2 [133 kB] Get:31 http://ftpmaster.internal/ubuntu/ trusty/main gnupg arm64 1.4.15-1.1ubuntu2 [545 kB] Get:32 http://ftpmaster.internal/ubuntu/ trusty/main apt arm64 0.9.14.1ubuntu1 [942 kB] Get:33 http://ftpmaster.internal/ubuntu/ trusty-proposed/main bsdutils arm64 1:2.20.1-5.1ubuntu11 [32.6 kB] Get:34 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libuuid1 arm64 2.20.1-5.1ubuntu11 [9652 B] Get:35 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libblkid1 arm64 2.20.1-5.1ubuntu11 [50.3 kB] Get:36 http://ftpmaster.internal/ubuntu/ trusty/main libcomerr2 arm64 1.42.8-1ubuntu3 [60.5 kB] Get:37 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libmount1 arm64 2.20.1-5.1ubuntu11 [46.3 kB] Get:38 http://ftpmaster.internal/ubuntu/ trusty/main libss2 arm64 1.42.8-1ubuntu3 [64.0 kB] Get:39 http://ftpmaster.internal/ubuntu/ trusty/main libustr-1.0-1 arm64 1.0.4-3ubuntu2 [50.4 kB] Get:40 http://ftpmaster.internal/ubuntu/ trusty-proposed/main libgcrypt11 arm64 1.5.3-2ubuntu2 [217 kB] Get:41 http://ftpmaster.internal/ubuntu/ trusty/main liblockfile-bin arm64 1.09-6ubuntu1 [10.2 kB] Get:42 http://ftpmaster.internal/ubuntu/ trusty/main liblockfile1 arm64 1.09-6ubuntu1 [7158 B] Get:43 http://ftpmaster.internal/ubuntu/ trusty/main libsqlite3-0 arm64 3.8.1-1ubuntu3 [278 kB] Get:44 http://ftpmaster.internal/ubuntu/ trusty/main plymouth arm64 0.8.8-0ubuntu12 [81.7 kB] Get:45 http://ftpmaster.internal/ubuntu/ trusty/main libplymouth2 arm64 0.8.8-0ubuntu12 [61.3 kB] Get:46 http://ftpmaster.internal/ubuntu/ trusty-proposed/main multiarch-support arm64 2.18-0ubuntu1 [4486 B] Get:47 http://ftpmaster.internal/ubuntu/ trusty/main klibc-utils arm64 2.0.2-1ubuntu2 [103 kB] Get:48 http://ftpmaster.internal/ubuntu/ trusty/main libklibc arm64 2.0.2-1ubuntu2 [39.5 kB] Get:49 http://ftpmaster.internal/ubuntu/ trusty/main apt-transport-https arm64 0.9.14.1ubuntu1 [24.4 kB] Get:50 http://ftpmaster.internal/ubuntu/ trusty/main cpp arm64 4:4.8.2-1ubuntu2 [27.7 kB] Get:51 http://ftpmaster.internal/ubuntu/ trusty/main gcc arm64 4:4.8.2-1ubuntu2 [4998 B] Get:52 http://ftpmaster.internal/ubuntu/ trusty/main g++ arm64 4:4.8.2-1ubuntu2 [1482 B] Get:53 http://ftpmaster.internal/ubuntu/ trusty-proposed/main build-essential arm64 11.6ubuntu6 [4828 B] Get:54 http://ftpmaster.internal/ubuntu/ trusty/main libfakeroot arm64 1.20-3ubuntu1 [20.6 kB] Get:55 http://ftpmaster.internal/ubuntu/ trusty/main fakeroot arm64 1.20-3ubuntu1 [52.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 34.5 MB in 33s (1046 kB/s) (Reading database ... 11898 files and directories currently installed.) Preparing to replace libc6-dev:arm64 2.17-93ubuntu4 (using .../libc6-dev_2.18-0ubuntu1_arm64.deb) ... Unpacking replacement libc6-dev:arm64 ... Preparing to replace libc-dev-bin 2.17-93ubuntu4 (using .../libc-dev-bin_2.18-0ubuntu1_arm64.deb) ... Unpacking replacement libc-dev-bin ... Preparing to replace linux-libc-dev:arm64 3.12.0-5.13 (using .../linux-libc-dev_3.12.0-7.15_arm64.deb) ... Unpacking replacement linux-libc-dev:arm64 ... Preparing to replace libc6:arm64 2.17-93ubuntu4 (using .../libc6_2.18-0ubuntu1_arm64.deb) ... Checking for services that may need to be restarted... Checking init scripts... Checking for services that may need to be restarted... Checking init scripts... Nothing to restart. Unpacking replacement libc6:arm64 ... Preparing to replace libgcc1:arm64 1:4.8.2-1ubuntu2 (using .../libgcc1_1%3a4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libgcc1:arm64 ... Preparing to replace gcc-4.8-base:arm64 4.8.2-1ubuntu2 (using .../gcc-4.8-base_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement gcc-4.8-base:arm64 ... Setting up gcc-4.8-base:arm64 (4.8.2-10ubuntu1) ... Setting up libc6:arm64 (2.18-0ubuntu1) ... Checking for services that may need to be restarted... Checking init scripts... Nothing to restart. Setting up libgcc1:arm64 (1:4.8.2-10ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 11900 files and directories currently installed.) Preparing to replace libc-bin 2.17-93ubuntu4 (using .../libc-bin_2.18-0ubuntu1_arm64.deb) ... Unpacking replacement libc-bin ... Setting up libc-bin (2.18-0ubuntu1) ... (Reading database ... 11900 files and directories currently installed.) Preparing to replace libgomp1:arm64 4.8.2-1ubuntu2 (using .../libgomp1_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libgomp1:arm64 ... Preparing to replace libatomic1:arm64 4.8.2-1ubuntu2 (using .../libatomic1_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libatomic1:arm64 ... Preparing to replace cpp-4.8 4.8.2-1ubuntu2 (using .../cpp-4.8_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement cpp-4.8 ... Preparing to replace libstdc++-4.8-dev:arm64 4.8.2-1ubuntu2 (using .../libstdc++-4.8-dev_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libstdc++-4.8-dev:arm64 ... Preparing to replace g++-4.8 4.8.2-1ubuntu2 (using .../g++-4.8_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement g++-4.8 ... Preparing to replace gcc-4.8 4.8.2-1ubuntu2 (using .../gcc-4.8_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement gcc-4.8 ... Preparing to replace libgcc-4.8-dev:arm64 4.8.2-1ubuntu2 (using .../libgcc-4.8-dev_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libgcc-4.8-dev:arm64 ... Preparing to replace libstdc++6:arm64 4.8.2-1ubuntu2 (using .../libstdc++6_4.8.2-10ubuntu1_arm64.deb) ... Unpacking replacement libstdc++6:arm64 ... Setting up libstdc++6:arm64 (4.8.2-10ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace libgmp10:arm64 2:5.1.2+dfsg-3ubuntu2 (using .../libgmp10_2%3a5.1.2+dfsg-3ubuntu3_arm64.deb) ... Unpacking replacement libgmp10:arm64 ... Preparing to replace binutils 2.24-1ubuntu2 (using .../binutils_2.24-2ubuntu1_arm64.deb) ... Unpacking replacement binutils ... Preparing to replace e2fslibs:arm64 1.42.8-1ubuntu1 (using .../e2fslibs_1.42.8-1ubuntu3_arm64.deb) ... Unpacking replacement e2fslibs:arm64 ... Setting up e2fslibs:arm64 (1.42.8-1ubuntu3) ... Processing triggers for libc-bin ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace e2fsprogs 1.42.8-1ubuntu1 (using .../e2fsprogs_1.42.8-1ubuntu3_arm64.deb) ... Unpacking replacement e2fsprogs ... Setting up e2fsprogs (1.42.8-1ubuntu3) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace hostname 3.13ubuntu1 (using .../hostname_3.15ubuntu1_arm64.deb) ... Unpacking replacement hostname ... Setting up hostname (3.15ubuntu1) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace mount 2.20.1-5.1ubuntu10 (using .../mount_2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement mount ... Setting up mount (2.20.1-5.1ubuntu11) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace perl 5.18.1-4build1 (using .../perl_5.18.1-5_arm64.deb) ... Unpacking replacement perl ... Preparing to replace perl-base 5.18.1-4build1 (using .../perl-base_5.18.1-5_arm64.deb) ... Unpacking replacement perl-base ... Setting up perl-base (5.18.1-5) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace perl-modules 5.18.1-4build1 (using .../perl-modules_5.18.1-5_all.deb) ... Unpacking replacement perl-modules ... Preparing to replace libdb5.3:arm64 5.3.28-3 (using .../libdb5.3_5.3.28-3ubuntu1_arm64.deb) ... Unpacking replacement libdb5.3:arm64 ... Setting up libdb5.3:arm64 (5.3.28-3ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace sed 4.2.2-2ubuntu1 (using .../sed_4.2.2-2ubuntu2_arm64.deb) ... Unpacking replacement sed ... Setting up sed (4.2.2-2ubuntu2) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace tar 1.27-3 (using .../archives/tar_1.27-4_arm64.deb) ... Unpacking replacement tar ... Setting up tar (1.27-4) ... (Reading database ... 11916 files and directories currently installed.) Preparing to replace util-linux 2.20.1-5.1ubuntu10 (using .../util-linux_2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement util-linux ... Setting up util-linux (2.20.1-5.1ubuntu11) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libapt-pkg4.12:arm64 0.9.13.1~ubuntu1 (using .../libapt-pkg4.12_0.9.14.1ubuntu1_arm64.deb) ... Unpacking replacement libapt-pkg4.12:arm64 ... Setting up libapt-pkg4.12:arm64 (0.9.14.1ubuntu1) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace gpgv 1.4.15-1.1ubuntu1 (using .../gpgv_1.4.15-1.1ubuntu2_arm64.deb) ... Unpacking replacement gpgv ... Setting up gpgv (1.4.15-1.1ubuntu2) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace gnupg 1.4.15-1.1ubuntu1 (using .../gnupg_1.4.15-1.1ubuntu2_arm64.deb) ... Unpacking replacement gnupg ... Setting up gnupg (1.4.15-1.1ubuntu2) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace apt 0.9.13.1~ubuntu1 (using .../apt_0.9.14.1ubuntu1_arm64.deb) ... Unpacking replacement apt ... Setting up apt (0.9.14.1ubuntu1) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace bsdutils 1:2.20.1-5.1ubuntu10 (using .../bsdutils_1%3a2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (1:2.20.1-5.1ubuntu11) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libuuid1:arm64 2.20.1-5.1ubuntu10 (using .../libuuid1_2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement libuuid1:arm64 ... Setting up libuuid1:arm64 (2.20.1-5.1ubuntu11) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libblkid1:arm64 2.20.1-5.1ubuntu10 (using .../libblkid1_2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement libblkid1:arm64 ... Setting up libblkid1:arm64 (2.20.1-5.1ubuntu11) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libcomerr2:arm64 1.42.8-1ubuntu1 (using .../libcomerr2_1.42.8-1ubuntu3_arm64.deb) ... Unpacking replacement libcomerr2:arm64 ... Setting up libcomerr2:arm64 (1.42.8-1ubuntu3) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libmount1:arm64 2.20.1-5.1ubuntu10 (using .../libmount1_2.20.1-5.1ubuntu11_arm64.deb) ... Unpacking replacement libmount1:arm64 ... Setting up libmount1:arm64 (2.20.1-5.1ubuntu11) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libss2:arm64 1.42.8-1ubuntu1 (using .../libss2_1.42.8-1ubuntu3_arm64.deb) ... Unpacking replacement libss2:arm64 ... Setting up libss2:arm64 (1.42.8-1ubuntu3) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libustr-1.0-1:arm64 1.0.4-3ubuntu1 (using .../libustr-1.0-1_1.0.4-3ubuntu2_arm64.deb) ... Unpacking replacement libustr-1.0-1:arm64 ... Setting up libustr-1.0-1:arm64 (1.0.4-3ubuntu2) ... Processing triggers for libc-bin ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace libgcrypt11:arm64 1.5.3-2ubuntu1 (using .../libgcrypt11_1.5.3-2ubuntu2_arm64.deb) ... Unpacking replacement libgcrypt11:arm64 ... Preparing to replace liblockfile-bin 1.09-6 (using .../liblockfile-bin_1.09-6ubuntu1_arm64.deb) ... Unpacking replacement liblockfile-bin ... Preparing to replace liblockfile1:arm64 1.09-6 (using .../liblockfile1_1.09-6ubuntu1_arm64.deb) ... Unpacking replacement liblockfile1:arm64 ... Preparing to replace libsqlite3-0:arm64 3.8.1-1ubuntu1 (using .../libsqlite3-0_3.8.1-1ubuntu3_arm64.deb) ... Unpacking replacement libsqlite3-0:arm64 ... Preparing to replace plymouth 0.8.8-0ubuntu11 (using .../plymouth_0.8.8-0ubuntu12_arm64.deb) ... Unpacking replacement plymouth ... Preparing to replace libplymouth2:arm64 0.8.8-0ubuntu11 (using .../libplymouth2_0.8.8-0ubuntu12_arm64.deb) ... Unpacking replacement libplymouth2:arm64 ... Preparing to replace multiarch-support 2.17-93ubuntu4 (using .../multiarch-support_2.18-0ubuntu1_arm64.deb) ... Unpacking replacement multiarch-support ... Setting up multiarch-support (2.18-0ubuntu1) ... (Reading database ... 11920 files and directories currently installed.) Preparing to replace klibc-utils 2.0.2-1ubuntu1 (using .../klibc-utils_2.0.2-1ubuntu2_arm64.deb) ... Unpacking replacement klibc-utils ... Preparing to replace libklibc 2.0.2-1ubuntu1 (using .../libklibc_2.0.2-1ubuntu2_arm64.deb) ... Unpacking replacement libklibc ... Preparing to replace apt-transport-https 0.9.13.1~ubuntu1 (using .../apt-transport-https_0.9.14.1ubuntu1_arm64.deb) ... Unpacking replacement apt-transport-https ... Preparing to replace cpp 4:4.8.1-2ubuntu3 (using .../cpp_4%3a4.8.2-1ubuntu2_arm64.deb) ... Unpacking replacement cpp ... Preparing to replace gcc 4:4.8.1-2ubuntu3 (using .../gcc_4%3a4.8.2-1ubuntu2_arm64.deb) ... Removing old gcc doc directory. Unpacking replacement gcc ... Preparing to replace g++ 4:4.8.1-2ubuntu3 (using .../g++_4%3a4.8.2-1ubuntu2_arm64.deb) ... Unpacking replacement g++ ... Preparing to replace build-essential 11.6ubuntu5 (using .../build-essential_11.6ubuntu6_arm64.deb) ... Unpacking replacement build-essential ... Preparing to replace libfakeroot:arm64 1.20-3 (using .../libfakeroot_1.20-3ubuntu1_arm64.deb) ... Unpacking replacement libfakeroot:arm64 ... Preparing to replace fakeroot 1.20-3 (using .../fakeroot_1.20-3ubuntu1_arm64.deb) ... Unpacking replacement fakeroot ... Setting up libc-dev-bin (2.18-0ubuntu1) ... Setting up linux-libc-dev:arm64 (3.12.0-7.15) ... Setting up libc6-dev:arm64 (2.18-0ubuntu1) ... Setting up libgomp1:arm64 (4.8.2-10ubuntu1) ... Setting up libatomic1:arm64 (4.8.2-10ubuntu1) ... Setting up libgmp10:arm64 (2:5.1.2+dfsg-3ubuntu3) ... Setting up cpp-4.8 (4.8.2-10ubuntu1) ... Setting up libgcc-4.8-dev:arm64 (4.8.2-10ubuntu1) ... Setting up libstdc++-4.8-dev:arm64 (4.8.2-10ubuntu1) ... Setting up binutils (2.24-2ubuntu1) ... Setting up gcc-4.8 (4.8.2-10ubuntu1) ... Setting up g++-4.8 (4.8.2-10ubuntu1) ... Setting up libgcrypt11:arm64 (1.5.3-2ubuntu2) ... Setting up liblockfile-bin (1.09-6ubuntu1) ... Setting up liblockfile1:arm64 (1.09-6ubuntu1) ... Setting up libsqlite3-0:arm64 (3.8.1-1ubuntu3) ... Setting up libplymouth2:arm64 (0.8.8-0ubuntu12) ... Setting up plymouth (0.8.8-0ubuntu12) ... update-initramfs: deferring update (trigger activated) Setting up libklibc (2.0.2-1ubuntu2) ... Setting up klibc-utils (2.0.2-1ubuntu2) ... Setting up apt-transport-https (0.9.14.1ubuntu1) ... Setting up cpp (4:4.8.2-1ubuntu2) ... Setting up gcc (4:4.8.2-1ubuntu2) ... Setting up g++ (4:4.8.2-1ubuntu2) ... Setting up build-essential (11.6ubuntu6) ... Setting up libfakeroot:arm64 (1.20-3ubuntu1) ... Setting up fakeroot (1.20-3ubuntu1) ... Setting up perl-modules (5.18.1-5) ... Setting up perl (5.18.1-5) ... Processing triggers for libc-bin ... Processing triggers for initramfs-tools ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-5342724', 'arm64', 'trusty-proposed', '--nolog', '--batch', '--archive=ubuntu', '--dist=trusty-proposed', '--purpose=PRIMARY', '--architecture=arm64', '--comp=multiverse', 'clustalw_2.1+lgpl-4.dsc'] Initiating build PACKAGEBUILD-5342724 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.8.0 #1 SMP Tue Oct 8 01:20:46 ICT 2013 aarch64 Automatic build of clustalw_2.1+lgpl-4 on birch by sbuild/arm64 1.170.5 Build started at 20131216-1446 ****************************************************************************** clustalw_2.1+lgpl-4.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9), autotools-dev Checking for already installed source dependencies... debhelper: missing autotools-dev: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper autotools-dev Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: apparmor-easyprof bsdmainutils dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.3 python3.3-minimal Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl python3-doc python3-tk python3.3-doc binfmt-support Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: apparmor-easyprof autotools-dev bsdmainutils debhelper dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libpipeline1 libpython3-stdlib libpython3.3-minimal libpython3.3-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.3 python3.3-minimal 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 9487 kB of archives. After this operation, 41.6 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main libexpat1 arm64 2.1.0-4ubuntu1 [56.6 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libmagic1 arm64 1:5.14-2ubuntu1 [176 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main libssl1.0.0 arm64 1.0.1e-4ubuntu3 [649 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-minimal arm64 3.3.3-4 [390 kB] Get:5 http://ftpmaster.internal/ubuntu/ trusty/main mime-support all 3.54ubuntu1 [31.7 kB] Get:6 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.3-stdlib arm64 3.3.3-4 [1940 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main python3.3-minimal arm64 3.3.3-4 [1057 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main libasprintf0c2 arm64 0.18.3.1-1ubuntu2 [6604 B] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main libglib2.0-0 arm64 2.39.1-0ubuntu3 [847 kB] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main libpipeline1 arm64 1.2.5-1 [20.4 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libxml2 arm64 2.9.1+dfsg1-3ubuntu3 [458 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main groff-base arm64 1.22.2-3 [688 kB] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main bsdmainutils arm64 9.0.5ubuntu1 [199 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main man-db arm64 2.6.5-2 [678 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main libcroco3 arm64 0.6.8-2ubuntu1 [65.1 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libunistring0 arm64 0.9.3-5ubuntu2 [250 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main python3.3 arm64 3.3.3-4 [129 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main python3-minimal arm64 3.3.2-17 [27.0 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty/main libpython3-stdlib arm64 3.3.2-17 [7866 B] Get:20 http://ftpmaster.internal/ubuntu/ trusty/main python3 arm64 3.3.2-17 [9190 B] Get:21 http://ftpmaster.internal/ubuntu/ trusty-proposed/main dh-python all 1.20131021-1ubuntu3 [50.3 kB] Get:22 http://ftpmaster.internal/ubuntu/ trusty/main file arm64 1:5.14-2ubuntu1 [18.7 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty/main gettext-base arm64 0.18.3.1-1ubuntu2 [45.7 kB] Get:24 http://ftpmaster.internal/ubuntu/ trusty/main autotools-dev all 20130810.1 [44.3 kB] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main gettext arm64 0.18.3.1-1ubuntu2 [769 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty/main apparmor-easyprof all 2.8.0-0ubuntu35 [20.1 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main dh-apparmor all 2.8.0-0ubuntu35 [7300 B] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main debhelper all 9.20131127ubuntu1 [604 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9487 kB in 13s (686 kB/s) Selecting previously unselected package libexpat1:arm64. (Reading database ... 11920 files and directories currently installed.) Unpacking libexpat1:arm64 (from .../libexpat1_2.1.0-4ubuntu1_arm64.deb) ... Selecting previously unselected package libmagic1:arm64. Unpacking libmagic1:arm64 (from .../libmagic1_1%3a5.14-2ubuntu1_arm64.deb) ... Selecting previously unselected package libssl1.0.0:arm64. Unpacking libssl1.0.0:arm64 (from .../libssl1.0.0_1.0.1e-4ubuntu3_arm64.deb) ... Selecting previously unselected package libpython3.3-minimal:arm64. Unpacking libpython3.3-minimal:arm64 (from .../libpython3.3-minimal_3.3.3-4_arm64.deb) ... Selecting previously unselected package mime-support. Unpacking mime-support (from .../mime-support_3.54ubuntu1_all.deb) ... Selecting previously unselected package libpython3.3-stdlib:arm64. Unpacking libpython3.3-stdlib:arm64 (from .../libpython3.3-stdlib_3.3.3-4_arm64.deb) ... Selecting previously unselected package python3.3-minimal. Unpacking python3.3-minimal (from .../python3.3-minimal_3.3.3-4_arm64.deb) ... Selecting previously unselected package libasprintf0c2:arm64. Unpacking libasprintf0c2:arm64 (from .../libasprintf0c2_0.18.3.1-1ubuntu2_arm64.deb) ... Selecting previously unselected package libglib2.0-0:arm64. Unpacking libglib2.0-0:arm64 (from .../libglib2.0-0_2.39.1-0ubuntu3_arm64.deb) ... Selecting previously unselected package libpipeline1:arm64. Unpacking libpipeline1:arm64 (from .../libpipeline1_1.2.5-1_arm64.deb) ... Selecting previously unselected package libxml2:arm64. Unpacking libxml2:arm64 (from .../libxml2_2.9.1+dfsg1-3ubuntu3_arm64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.22.2-3_arm64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.5ubuntu1_arm64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.5-2_arm64.deb) ... Selecting previously unselected package libcroco3:arm64. Unpacking libcroco3:arm64 (from .../libcroco3_0.6.8-2ubuntu1_arm64.deb) ... Selecting previously unselected package libunistring0:arm64. Unpacking libunistring0:arm64 (from .../libunistring0_0.9.3-5ubuntu2_arm64.deb) ... Selecting previously unselected package python3.3. Unpacking python3.3 (from .../python3.3_3.3.3-4_arm64.deb) ... Selecting previously unselected package python3-minimal. Unpacking python3-minimal (from .../python3-minimal_3.3.2-17_arm64.deb) ... Selecting previously unselected package libpython3-stdlib:arm64. Unpacking libpython3-stdlib:arm64 (from .../libpython3-stdlib_3.3.2-17_arm64.deb) ... Selecting previously unselected package python3. Unpacking python3 (from .../python3_3.3.2-17_arm64.deb) ... Selecting previously unselected package dh-python. Unpacking dh-python (from .../dh-python_1.20131021-1ubuntu3_all.deb) ... Selecting previously unselected package file. Unpacking file (from .../file_1%3a5.14-2ubuntu1_arm64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.3.1-1ubuntu2_arm64.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20130810.1_all.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.3.1-1ubuntu2_arm64.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2ubuntu1_all.deb) ... Selecting previously unselected package apparmor-easyprof. Unpacking apparmor-easyprof (from .../apparmor-easyprof_2.8.0-0ubuntu35_all.deb) ... Selecting previously unselected package dh-apparmor. Unpacking dh-apparmor (from .../dh-apparmor_2.8.0-0ubuntu35_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20131127ubuntu1_all.deb) ... Setting up libexpat1:arm64 (2.1.0-4ubuntu1) ... Setting up libmagic1:arm64 (1:5.14-2ubuntu1) ... Setting up libssl1.0.0:arm64 (1.0.1e-4ubuntu3) ... Setting up libpython3.3-minimal:arm64 (3.3.3-4) ... Setting up mime-support (3.54ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up libpython3.3-stdlib:arm64 (3.3.3-4) ... Setting up python3.3-minimal (3.3.3-4) ... Setting up libasprintf0c2:arm64 (0.18.3.1-1ubuntu2) ... Setting up libglib2.0-0:arm64 (2.39.1-0ubuntu3) ... No schema files found: doing nothing. Setting up libpipeline1:arm64 (1.2.5-1) ... Setting up libxml2:arm64 (2.9.1+dfsg1-3ubuntu3) ... Setting up groff-base (1.22.2-3) ... Setting up bsdmainutils (9.0.5ubuntu1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up man-db (2.6.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libcroco3:arm64 (0.6.8-2ubuntu1) ... Setting up libunistring0:arm64 (0.9.3-5ubuntu2) ... Setting up python3.3 (3.3.3-4) ... Setting up python3-minimal (3.3.2-17) ... Setting up libpython3-stdlib:arm64 (3.3.2-17) ... Setting up file (1:5.14-2ubuntu1) ... Setting up gettext-base (0.18.3.1-1ubuntu2) ... Setting up autotools-dev (20130810.1) ... Setting up gettext (0.18.3.1-1ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-python (1.20131021-1ubuntu3) ... Setting up python3 (3.3.2-17) ... running python rtupdate hooks for python3.3... running python post-rtupdate hooks for python3.3... Setting up apparmor-easyprof (2.8.0-0ubuntu35) ... Setting up dh-apparmor (2.8.0-0ubuntu35) ... Setting up debhelper (9.20131127ubuntu1) ... Processing triggers for libc-bin ... Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.18-0ubuntu1 make_3.81-8.2ubuntu3 dpkg-dev_1.17.1ubuntu1 gcc-4.8_4.8.2-10ubuntu1 g++-4.8_4.8.2-10ubuntu1 binutils_2.24-2ubuntu1 libstdc++-4.8-dev_4.8.2-10ubuntu1 libstdc++6_4.8.2-10ubuntu1 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt gpgv: Signature made Fri Dec 13 08:23:13 2013 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-4.dsc dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz dpkg-source: info: unpacking clustalw_2.1+lgpl-4.debian.tar.gz dpkg-buildpackage: source package clustalw dpkg-buildpackage: source version 2.1+lgpl-4 dpkg-buildpackage: source distribution unstable dpkg-source --before-build clustalw-2.1+lgpl dpkg-buildpackage: host architecture arm64 /usr/bin/fakeroot debian/rules clean dh clean --with autotools_dev dh_testdir dh_auto_clean dh_autotools-dev_restoreconfig dh_clean debian/rules build-arch dh build-arch --with autotools_dev dh_testdir -a dh_autotools-dev_updateconfig -a dh_auto_configure -a configure: WARNING: unrecognized options: --disable-maintainer-mode checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking target system type... aarch64-unknown-linux-gnu building for linux-gnu 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 sets $(MAKE)... (cached) yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for style of include used by make... GNU checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for ranlib... ranlib checking how to run the C++ preprocessor... g++ -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 for stdbool.h that conforms to C99... yes checking for _Bool... no checking for an ANSI C-conforming const... yes checking for size_t... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes configure: creating ./config.status config.status: creating Makefile config.status: creating m4/Makefile config.status: creating src/Makefile config.status: creating src/clustalw_version.h config.status: creating src/config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -a make[1]: Entering directory `/build/buildd/clustalw-2.1+lgpl' Making all in m4 make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/m4' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/m4' Making all in src make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make all-recursive make[3]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make[4]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp In file included from ./pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./pairwise/../alignment/Alignment.h:42, from ./pairwise/PairwiseAlignBase.h:10, from ./pairwise/FullPairwiseAlign.h:9, from ./pairwise/FullPairwiseAlign.cpp:9: ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp In file included from ./pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./pairwise/../alignment/Alignment.h:42, from ./pairwise/PairwiseAlignBase.h:10, from ./pairwise/FastPairwiseAlign.h:9, from ./pairwise/FastPairwiseAlign.cpp:10: ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp In file included from ./fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./fileInput/../alignment/Alignment.h:42, from ./fileInput/FileReader.h:12, from ./fileInput/FileReader.cpp:29: ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/../ClusterTree.h:20, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/UPGMAAlgorithm.h:8, from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/RootedGuideTree.cpp:10: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/RootedTreeOutput.h:15, from ./tree/UPGMA/RootedTreeOutput.cpp:9: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/../alignment/Alignment.h:42, from ./tree/Tree.h:13, from ./tree/Tree.cpp:10: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTree.h:20, from ./tree/ClusterTree.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/../alignment/Alignment.h:42, from ./tree/TreeInterface.h:19, from ./tree/TreeInterface.cpp:15: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTree.h:20, from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTreeOutput.h:11, from ./tree/ClusterTreeOutput.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp In file included from ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./interface/../fileInput/../alignment/Alignment.h:42, from ./interface/../fileInput/FileReader.h:12, from ./interface/../Clustal.h:18, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ ./interface/InteractiveMenu.cpp: In member function 'void clustalw::InteractiveMenu::doSystem()': ./interface/InteractiveMenu.cpp:1190:29: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(lin1.c_str()); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp In file included from ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./interface/../fileInput/../alignment/Alignment.h:42, from ./interface/../fileInput/FileReader.h:12, from ./interface/../Clustal.h:18, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp In file included from ./substitutionMatrix/SubMatrix.cpp:15:0: ./substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/Iteration.cpp: In member function 'bool clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)': ./multipleAlign/Iteration.cpp:231:32: warning: ignoring return value of 'char* tmpnam(char*)', declared with attribute warn_unused_result [-Wunused-result] tmpnam (buffer); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileBase.h:14, from ./multipleAlign/MSA.h:10, from ./multipleAlign/MSA.cpp:16: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileAlignAlgorithm.h:10, from ./multipleAlign/MyersMillerProfileAlign.h:10, from ./multipleAlign/MyersMillerProfileAlign.cpp:10: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileStandard.h:9, from ./multipleAlign/ProfileStandard.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileWithSub.h:9, from ./multipleAlign/ProfileWithSub.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileBase.h:14, from ./multipleAlign/ProfileBase.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/LowScoreSegProfile.h:13, from ./multipleAlign/LowScoreSegProfile.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp ./general/Utility.cpp: In member function 'double clustalw::Utility::getReal(const char*, double, double, double)': ./general/Utility.cpp:183:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, MAXLINE, stdin); ^ ./general/Utility.cpp: In member function 'int clustalw::Utility::getInt(const char*, int, int, int)': ./general/Utility.cpp:221:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, MAXLINE, stdin); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp In file included from ./general/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./general/../alignment/Alignment.h:42, from ./general/Stats.cpp:15: ./general/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./general/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./alignment/Alignment.h:42, from ./alignment/Alignment.cpp:25: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./alignment/Alignment.h:42, from ./alignment/AlignmentOutput.h:24, from ./alignment/AlignmentOutput.cpp:27: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./alignment/ObjectiveScore.h:15, from ./alignment/ObjectiveScore.cpp:10: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp In file included from ./fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./fileInput/../alignment/Alignment.h:42, from ./fileInput/FileReader.h:12, from ./Clustal.h:18, from ./Clustal.cpp:27: ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -g -O2 -Wformat -Werror=format-security -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8:0, from ./alignment/Alignment.h:42, from ./main.cpp:10: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printInFormat(vector& temp, char* name = "tempfile.out"); ^ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] void printVectorToFile(vector& temp, char* name = "tempfile.out"); ^ g++ -g -O2 -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o Iteration.o: In function `__gnu_cxx::new_allocator::allocate(unsigned long, void const*)': /build/buildd/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp' make[4]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[3]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' make[1]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' dh_auto_test -a make[1]: Entering directory `/build/buildd/clustalw-2.1+lgpl' Making check in m4 make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/m4' make[2]: Nothing to be done for `check'. make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/m4' Making check in src make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make[3]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make[3]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl' make[2]: Nothing to be done for `check-am'. make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' make[1]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' /usr/bin/fakeroot debian/rules binary-arch dh binary-arch --with autotools_dev dh_testroot -a dh_prep -a dh_auto_install -a make[1]: Entering directory `/build/buildd/clustalw-2.1+lgpl' Making install in m4 make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/m4' make[3]: Entering directory `/build/buildd/clustalw-2.1+lgpl/m4' make[3]: Nothing to be done for `install-exec-am'. test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal" make[3]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/m4' make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/m4' Making install in src make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make[3]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' make[4]: Entering directory `/build/buildd/clustalw-2.1+lgpl/src' test -z "/usr/bin" || /bin/mkdir -p "/build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/bin" /usr/bin/install -c clustalw2 '/build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/bin' make[4]: Nothing to be done for `install-data-am'. make[4]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[3]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl/src' make[2]: Entering directory `/build/buildd/clustalw-2.1+lgpl' make[3]: Entering directory `/build/buildd/clustalw-2.1+lgpl' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' make[2]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' make[1]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' debian/rules override_dh_install make[1]: Entering directory `/build/buildd/clustalw-2.1+lgpl' dh_install # We have to ask upstream if it is important for them that the binary is named clustalw2 mv /build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw # That is a bit ugly and should be better investigated. rmdir /build/buildd/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/ make[1]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' dh_installdocs -a debian/rules override_dh_installchangelogs make[1]: Entering directory `/build/buildd/clustalw-2.1+lgpl' dh_installchangelogs debian/CHANGELOG.upstream make[1]: Leaving directory `/build/buildd/clustalw-2.1+lgpl' dh_installexamples -a dh_installman -a dh_installmenu -a dh_perl -a dh_link -a dh_compress -a dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: all non-arch-all packages for this build platform arm64: clustalw dh_strip debug symbol extraction: packages to act on: clustalw dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-deb: building package `clustalw-dbgsym' in `../clustalw-dbgsym_2.1+lgpl-4_arm64.ddeb'. dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 118 pkgstriptranslations: processing clustalw (in debian/clustalw); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/clustalw/DEBIAN/control, package clustalw, directory debian/clustalw .. removing usr/share/doc/clustalw/changelog.gz pkgstripfiles: Truncating usr/share/doc/clustalw/changelog.Debian.gz to topmost ten records pkgstripfiles: PNG optimization for package clustalw took 0 s dpkg-deb: warning: 'debian/clustalw/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-4_arm64.deb'. dpkg-genchanges -B -mUbuntu Build Daemon >../clustalw_2.1+lgpl-4_arm64.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build clustalw-2.1+lgpl dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20131216-1449 Publishing debug debs. chroot-autobuild/build/buildd/clustalw_2.1+lgpl-4_arm64.deb: new debian package, version 2.0. size 251446 bytes: control archive=1413 bytes. 1153 bytes, 23 lines control 878 bytes, 12 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: clustalw Version: 2.1+lgpl-4 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 787 Depends: libc6 (>= 2.17), libgcc1, libstdc++6 Suggests: clustalx, seaview Enhances: bioperl-run, emboss, t-coffee Section: science Priority: optional Homepage: http://www.clustal.org/clustal2/ Description: global multiple nucleotide or peptide sequence alignment This program performs an alignment of multiple nucleotide or amino acid sequences. It recognizes the format of input sequences and whether the sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output format may be selected from in various formats for multiple alignments such as Phylip or FASTA. Clustal W is very well accepted. . The output of Clustal W can be edited manually but preferably with an alignment editor like SeaView or within its companion Clustal X. When building a model from your alignment, this can be applied for improved database searches. The Debian package hmmer creates such in form of an HMM. chroot-autobuild/build/buildd/clustalw_2.1+lgpl-4_arm64.deb: drwxr-xr-x root/root 0 2013-12-16 14:49 ./ drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/ drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/ drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/doc/ drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/doc/clustalw/ -rw-r--r-- root/root 2045 2013-12-16 14:49 ./usr/share/doc/clustalw/changelog.Debian.gz -rw-r--r-- root/root 821 2013-12-13 08:21 ./usr/share/doc/clustalw/README.Debian -rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README -rw-r--r-- root/root 2091 2013-12-13 08:21 ./usr/share/doc/clustalw/copyright drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/doc/clustalw/examples/ drwxr-xr-x root/root 0 2013-12-13 08:21 ./usr/share/doc/clustalw/examples/tests.clustalw/ -rw-r--r-- root/root 1013 2013-12-13 08:21 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data -rw-r--r-- root/root 1007 2013-12-13 08:21 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data -rw-r--r-- root/root 552 2013-12-13 08:21 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile -rw-r--r-- root/root 157 2013-12-13 08:21 ./usr/share/doc/clustalw/examples/tests.clustalw/seq drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/menu/ -rw-r--r-- root/root 193 2013-12-13 08:21 ./usr/share/menu/clustalw drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/clustalw/ -rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/man/ drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/share/man/man1/ -rw-r--r-- root/root 4184 2013-12-16 14:49 ./usr/share/man/man1/clustalw.1.gz drwxr-xr-x root/root 0 2013-12-16 14:49 ./usr/bin/ -rwxr-xr-x root/root 698400 2013-12-16 14:49 ./usr/bin/clustalw clustalw_2.1+lgpl-4_arm64.changes: Format: 1.8 Date: Fri, 13 Dec 2013 09:18:40 +0100 Source: clustalw Binary: clustalw Architecture: arm64 Version: 2.1+lgpl-4 Distribution: trusty-proposed Urgency: medium Maintainer: Ubuntu Build Daemon Changed-By: Andreas Tille Description: clustalw - global multiple nucleotide or peptide sequence alignment Closes: 729789 Changes: clustalw (2.1+lgpl-4) unstable; urgency=medium . * use dh_autotools-dev to update config.{sub,guess} (Thanks for the patch to Adam Conrad ) Closes: #729789 * Standards-Version: 3.9.5 (no changes needed) Checksums-Sha1: fe9766841bbaeb24d7ea149340550e30ae3aabec 251446 clustalw_2.1+lgpl-4_arm64.deb Checksums-Sha256: 733dbc8b3176939c758262970526c8060af80bae34ddeb40b4e819842f3c6883 251446 clustalw_2.1+lgpl-4_arm64.deb Files: 2c5c74bc81ed1438d3c7334e893c4a71 251446 science optional clustalw_2.1+lgpl-4_arm64.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20131216-1449 Build needed 00:02:50, 44400k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-5342724'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-5342724/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-5342724'] Unmounting chroot for build PACKAGEBUILD-5342724... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-5342724'] Removing build PACKAGEBUILD-5342724