DC-Build-Header: abyss 2.0.2-3 / 2017-07-06 15:54:00 +0000 DC-Task: type:rebuild-binarch-only source:abyss version:2.0.2-3 chroot:unstable esttime: logfile:/tmp/abyss_2.0.2-3_unstable_clang4.0.log modes:clang40:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --chroot-setup-commands=/tmp/clang40 abyss_2.0.2-3' sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on ip-172-31-35-39.eu-central-1.compute.internal +==============================================================================+ | abyss 2.0.2-3 (amd64) Thu, 06 Jul 2017 15:54:00 +0000 | +==============================================================================+ Package: abyss Version: 2.0.2-3 Source Version: 2.0.2-3 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-1970fde9-e2c4-4792-bdfa-a26b8fb7c8eb' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang40 ------------ + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=4.0 + echo 'Install of clang-4.0' Install of clang-4.0 + apt-get update Get:1 http://127.0.0.1:9999/debian unstable InRelease [255 kB] Get:2 http://127.0.0.1:9999/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://127.0.0.1:9999/debian unstable/main Translation-en.diff/Index [27.9 kB] Get:5 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-02-0216.39.pdiff [15.0 kB] Get:6 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-02-0817.00.pdiff [7416 B] Get:7 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-02-1415.16.pdiff [17.0 kB] Get:8 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-02-2015.53.pdiff [15.2 kB] Get:9 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-03-0215.43.pdiff [50.2 kB] Get:10 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-03-0815.58.pdiff [5500 B] Get:11 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-03-1420.59.pdiff [15.8 kB] Get:12 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-03-2015.52.pdiff [15.6 kB] Get:13 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-04-0215.56.pdiff [7165 B] Get:14 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-04-0817.36.pdiff [8303 B] Get:15 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-04-1416.28.pdiff [11.7 kB] Get:16 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-04-2017.16.pdiff [12.7 kB] Get:17 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-05-0215.45.pdiff [7714 B] Get:18 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-05-0817.10.pdiff [6491 B] Get:19 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-05-1416.09.pdiff [13.0 kB] Get:20 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-05-2019.56.pdiff [14.2 kB] Get:21 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-06-0216.07.pdiff [9132 B] Get:22 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-06-0817.23.pdiff [16.8 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-02-0216.39.pdiff [31.6 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-02-0817.00.pdiff [12.0 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-02-1415.16.pdiff [11.6 kB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-02-2015.53.pdiff [12.9 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-03-0215.43.pdiff [63.1 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-03-0815.58.pdiff [23.3 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-03-1420.59.pdiff [40.0 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-03-2015.52.pdiff [28.4 kB] Get:22 http://127.0.0.1:9999/debian unstable/main Sources 2017-07-06-0817.23.pdiff [16.8 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-04-0215.56.pdiff [7447 B] Get:32 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-04-0817.36.pdiff [5458 B] Get:33 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-04-1416.28.pdiff [33.1 kB] Get:34 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-04-2017.16.pdiff [18.8 kB] Get:35 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-05-0215.45.pdiff [5901 B] Get:36 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-05-0817.10.pdiff [15.3 kB] Get:37 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-05-1416.09.pdiff [11.4 kB] Get:38 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-05-2019.56.pdiff [13.0 kB] Get:39 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-06-0216.07.pdiff [8638 B] Get:40 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-06-0817.23.pdiff [31.2 kB] Get:41 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-02-0216.39.pdiff [1271 B] Get:42 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-02-2015.53.pdiff [793 B] Get:43 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-03-0215.43.pdiff [327 B] Get:44 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-03-0815.58.pdiff [270 B] Get:45 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-03-1420.59.pdiff [1066 B] Get:46 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-03-2015.52.pdiff [465 B] Get:47 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-04-0215.56.pdiff [291 B] Get:48 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-04-0817.36.pdiff [539 B] Get:40 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2017-07-06-0817.23.pdiff [31.2 kB] Get:49 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-04-1416.28.pdiff [484 B] Get:50 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-04-2017.16.pdiff [1126 B] Get:51 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-05-0215.45.pdiff [214 B] Get:52 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-05-0817.10.pdiff [606 B] Get:53 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-05-1416.09.pdiff [214 B] Get:54 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-05-2019.56.pdiff [2615 B] Get:55 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-06-0216.07.pdiff [1869 B] Get:56 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-06-0817.23.pdiff [915 B] Get:56 http://127.0.0.1:9999/debian unstable/main Translation-en 2017-07-06-0817.23.pdiff [915 B] Fetched 974 kB in 1s (760 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-4.0 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: cpp-6 g++-6 gcc-6 gcc-6-base gcc-7-base libasan3 libatomic1 libbsd0 libcc1-0 libcilkrts5 libclang-common-4.0-dev libclang1-4.0 libedit2 libffi6 libgcc-6-dev libgcc1 libgomp1 libitm1 libjsoncpp1 libllvm4.0 liblsan0 libmpx2 libncurses5 libobjc-6-dev libobjc4 libquadmath0 libstdc++-6-dev libstdc++6 libtsan0 libubsan0 Suggested packages: gnustep gnustep-devel clang-4.0-doc libomp-dev gcc-6-locales g++-6-multilib gcc-6-doc libstdc++6-6-dbg gcc-6-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan3-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg libquadmath0-dbg libstdc++-6-doc Recommended packages: llvm-4.0-dev python libgpm2 The following NEW packages will be installed: clang-4.0 libbsd0 libclang-common-4.0-dev libclang1-4.0 libedit2 libffi6 libjsoncpp1 libllvm4.0 libncurses5 libobjc-6-dev libobjc4 The following packages will be upgraded: cpp-6 g++-6 gcc-6 gcc-6-base gcc-7-base libasan3 libatomic1 libcc1-0 libcilkrts5 libgcc-6-dev libgcc1 libgomp1 libitm1 liblsan0 libmpx2 libquadmath0 libstdc++-6-dev libstdc++6 libtsan0 libubsan0 20 upgraded, 11 newly installed, 0 to remove and 13 not upgraded. Need to get 101 MB of archives. After this operation, 320 MB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian unstable/main amd64 libquadmath0 amd64 7.1.0-9 [132 kB] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 libitm1 amd64 7.1.0-9 [27.2 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 gcc-7-base amd64 7.1.0-9 [180 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libstdc++6 amd64 7.1.0-9 [398 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 libmpx2 amd64 7.1.0-9 [11.4 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 liblsan0 amd64 7.1.0-9 [124 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libtsan0 amd64 7.1.0-9 [270 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 libubsan0 amd64 7.1.0-9 [117 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 libcilkrts5 amd64 7.1.0-9 [42.0 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libcc1-0 amd64 7.1.0-9 [37.7 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libatomic1 amd64 7.1.0-9 [8782 B] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libgomp1 amd64 7.1.0-9 [75.1 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 libgcc1 amd64 1:7.1.0-9 [39.3 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 libasan3 amd64 6.4.0-1 [310 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 g++-6 amd64 6.4.0-1 [7084 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 libstdc++-6-dev amd64 6.4.0-1 [1421 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 gcc-6 amd64 6.4.0-1 [6908 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 libgcc-6-dev amd64 6.4.0-1 [2297 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 cpp-6 amd64 6.4.0-1 [6549 kB] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 gcc-6-base amd64 6.4.0-1 [180 kB] Get:21 http://127.0.0.1:9999/debian unstable/main amd64 libbsd0 amd64 0.8.5-1 [89.6 kB] Get:22 http://127.0.0.1:9999/debian unstable/main amd64 libncurses5 amd64 6.0+20161126-1 [93.4 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 libedit2 amd64 3.1-20170329-1 [85.2 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 libllvm4.0 amd64 1:4.0.1-1 [12.3 MB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 libclang1-4.0 amd64 1:4.0.1-1 [6355 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 libobjc4 amd64 7.1.0-9 [51.0 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 libobjc-6-dev amd64 6.4.0-1 [197 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 libclang-common-4.0-dev amd64 1:4.0.1-1 [2495 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 clang-4.0 amd64 1:4.0.1-1 [52.7 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 101 MB in 1s (95.7 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9635 files and directories currently installed.) Preparing to unpack .../libquadmath0_7.1.0-9_amd64.deb ... Unpacking libquadmath0:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../libitm1_7.1.0-9_amd64.deb ... Unpacking libitm1:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../gcc-7-base_7.1.0-9_amd64.deb ... Unpacking gcc-7-base:amd64 (7.1.0-9) over (7.1.0-8) ... Setting up gcc-7-base:amd64 (7.1.0-9) ... (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 ... 9635 files and directories currently installed.) Preparing to unpack .../libstdc++6_7.1.0-9_amd64.deb ... Unpacking libstdc++6:amd64 (7.1.0-9) over (7.1.0-8) ... Setting up libstdc++6:amd64 (7.1.0-9) ... (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 ... 9635 files and directories currently installed.) Preparing to unpack .../0-libmpx2_7.1.0-9_amd64.deb ... Unpacking libmpx2:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../1-liblsan0_7.1.0-9_amd64.deb ... Unpacking liblsan0:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../2-libtsan0_7.1.0-9_amd64.deb ... Unpacking libtsan0:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../3-libubsan0_7.1.0-9_amd64.deb ... Unpacking libubsan0:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../4-libcilkrts5_7.1.0-9_amd64.deb ... Unpacking libcilkrts5:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../5-libcc1-0_7.1.0-9_amd64.deb ... Unpacking libcc1-0:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../6-libatomic1_7.1.0-9_amd64.deb ... Unpacking libatomic1:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../7-libgomp1_7.1.0-9_amd64.deb ... Unpacking libgomp1:amd64 (7.1.0-9) over (7.1.0-8) ... Preparing to unpack .../8-libgcc1_1%3a7.1.0-9_amd64.deb ... Unpacking libgcc1:amd64 (1:7.1.0-9) over (1:7.1.0-8) ... Setting up libgcc1:amd64 (1:7.1.0-9) ... (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 ... 9635 files and directories currently installed.) Preparing to unpack .../00-libasan3_6.4.0-1_amd64.deb ... Unpacking libasan3:amd64 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../01-g++-6_6.4.0-1_amd64.deb ... Unpacking g++-6 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../02-libstdc++-6-dev_6.4.0-1_amd64.deb ... Unpacking libstdc++-6-dev:amd64 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../03-gcc-6_6.4.0-1_amd64.deb ... Unpacking gcc-6 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../04-libgcc-6-dev_6.4.0-1_amd64.deb ... Unpacking libgcc-6-dev:amd64 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../05-cpp-6_6.4.0-1_amd64.deb ... Unpacking cpp-6 (6.4.0-1) over (6.3.0-21) ... Preparing to unpack .../06-gcc-6-base_6.4.0-1_amd64.deb ... Unpacking gcc-6-base:amd64 (6.4.0-1) over (6.3.0-21) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../07-libbsd0_0.8.5-1_amd64.deb ... Unpacking libbsd0:amd64 (0.8.5-1) ... Selecting previously unselected package libncurses5:amd64. Preparing to unpack .../08-libncurses5_6.0+20161126-1_amd64.deb ... Unpacking libncurses5:amd64 (6.0+20161126-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../09-libedit2_3.1-20170329-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20170329-1) ... Selecting previously unselected package libffi6:amd64. Preparing to unpack .../10-libffi6_3.2.1-6_amd64.deb ... Unpacking libffi6:amd64 (3.2.1-6) ... Selecting previously unselected package libllvm4.0:amd64. Preparing to unpack .../11-libllvm4.0_1%3a4.0.1-1_amd64.deb ... Unpacking libllvm4.0:amd64 (1:4.0.1-1) ... Selecting previously unselected package libclang1-4.0:amd64. Preparing to unpack .../12-libclang1-4.0_1%3a4.0.1-1_amd64.deb ... Unpacking libclang1-4.0:amd64 (1:4.0.1-1) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../13-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../14-libobjc4_7.1.0-9_amd64.deb ... Unpacking libobjc4:amd64 (7.1.0-9) ... Selecting previously unselected package libobjc-6-dev:amd64. Preparing to unpack .../15-libobjc-6-dev_6.4.0-1_amd64.deb ... Unpacking libobjc-6-dev:amd64 (6.4.0-1) ... Selecting previously unselected package libclang-common-4.0-dev. Preparing to unpack .../16-libclang-common-4.0-dev_1%3a4.0.1-1_amd64.deb ... Unpacking libclang-common-4.0-dev (1:4.0.1-1) ... Selecting previously unselected package clang-4.0. Preparing to unpack .../17-clang-4.0_1%3a4.0.1-1_amd64.deb ... Unpacking clang-4.0 (1:4.0.1-1) ... Setting up libquadmath0:amd64 (7.1.0-9) ... Setting up libncurses5:amd64 (6.0+20161126-1) ... Setting up libgomp1:amd64 (7.1.0-9) ... Setting up libatomic1:amd64 (7.1.0-9) ... Setting up libcc1-0:amd64 (7.1.0-9) ... Setting up libobjc4:amd64 (7.1.0-9) ... Setting up libcilkrts5:amd64 (7.1.0-9) ... Setting up libubsan0:amd64 (7.1.0-9) ... Setting up libtsan0:amd64 (7.1.0-9) ... Setting up gcc-6-base:amd64 (6.4.0-1) ... Setting up libbsd0:amd64 (0.8.5-1) ... Setting up liblsan0:amd64 (7.1.0-9) ... Setting up libmpx2:amd64 (7.1.0-9) ... Processing triggers for libc-bin (2.24-12) ... Setting up libffi6:amd64 (3.2.1-6) ... Setting up cpp-6 (6.4.0-1) ... Setting up libitm1:amd64 (7.1.0-9) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libedit2:amd64 (3.1-20170329-1) ... Setting up libasan3:amd64 (6.4.0-1) ... Setting up libgcc-6-dev:amd64 (6.4.0-1) ... Setting up libstdc++-6-dev:amd64 (6.4.0-1) ... Setting up gcc-6 (6.4.0-1) ... Setting up g++-6 (6.4.0-1) ... Setting up libllvm4.0:amd64 (1:4.0.1-1) ... Setting up libobjc-6-dev:amd64 (6.4.0-1) ... Setting up libclang1-4.0:amd64 (1:4.0.1-1) ... Setting up libclang-common-4.0-dev (1:4.0.1-1) ... Setting up clang-4.0 (1:4.0.1-1) ... Processing triggers for libc-bin (2.24-12) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9 5 6 7' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-4.0 g++-4.6 + ln -s clang-4.0 gcc-4.6 + ln -s clang-4.0 cpp-4.6 + ln -s clang-4.0 gcc + echo 'gcc-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.7 gcc-4.7 cpp-4.7 gcc + ln -s clang++-4.0 g++-4.7 + ln -s clang-4.0 gcc-4.7 + ln -s clang-4.0 cpp-4.7 + ln -s clang-4.0 gcc + echo 'gcc-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.8 gcc-4.8 cpp-4.8 gcc + ln -s clang++-4.0 g++-4.8 + ln -s clang-4.0 gcc-4.8 + ln -s clang-4.0 cpp-4.8 + ln -s clang-4.0 gcc + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.9 gcc-4.9 cpp-4.9 gcc + ln -s clang++-4.0 g++-4.9 + ln -s clang-4.0 gcc-4.9 + ln -s clang-4.0 cpp-4.9 + ln -s clang-4.0 gcc + echo 'gcc-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-5 gcc-5 cpp-5 gcc + ln -s clang++-4.0 g++-5 + ln -s clang-4.0 gcc-5 + ln -s clang-4.0 cpp-5 + ln -s clang-4.0 gcc + echo 'gcc-5 hold' + dpkg --set-selections + echo 'g++-5 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-6 gcc-6 cpp-6 gcc + ln -s clang++-4.0 g++-6 + ln -s clang-4.0 gcc-6 + ln -s clang-4.0 cpp-6 + ln -s clang-4.0 gcc + echo 'gcc-6 hold' + dpkg --set-selections + echo 'g++-6 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-7 gcc-7 cpp-7 gcc + ln -s clang++-4.0 g++-7 + ln -s clang-4.0 gcc-7 + ln -s clang-4.0 cpp-7 + ln -s clang-4.0 gcc + echo 'gcc-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + cd - /build/abyss-s2as30 + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + gcc --version + grep clang + cpp --version + grep clang + g++ --version + grep clang I: Finished running '/tmp/clang40'. Finished processing commands. -------------------------------------------------------------------------------- +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://127.0.0.1:9999/debian unstable InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: libgnutls30 libhogweed4 libidn2-0 libnettle6 libp11-kit0 libtasn1-6 libunistring2 The following packages will be upgraded: apt cpp debconf g++ gcc libapt-pkg5.0 libdebconfclient0 libperl5.24 libsystemd0 libudev1 perl perl-base perl-modules-5.24 13 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. Need to get 12.5 MB of archives. After this operation, 6330 kB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian unstable/main amd64 libperl5.24 amd64 5.24.1-6 [3525 kB] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 perl amd64 5.24.1-6 [218 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 perl-base amd64 5.24.1-6 [1344 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 perl-modules-5.24 all 5.24.1-6 [2723 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 libapt-pkg5.0 amd64 1.5~beta1 [922 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libnettle6 amd64 3.3-1+b1 [191 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libhogweed4 amd64 3.3-1+b1 [136 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 libunistring2 amd64 0.9.7-2 [377 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 libidn2-0 amd64 0.16-1+b1 [56.6 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libp11-kit0 amd64 0.23.7-2 [193 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libtasn1-6 amd64 4.12-2 [51.0 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libgnutls30 amd64 3.5.13-2 [914 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 apt amd64 1.5~beta1 [1237 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 debconf all 1.5.62 [160 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 libsystemd0 amd64 233-10 [281 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 libudev1 amd64 233-10 [126 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 libdebconfclient0 amd64 0.229 [47.9 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 cpp amd64 4:6.3.0-4d1 [18.8 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 gcc amd64 4:6.3.0-4d1 [5252 B] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 g++ amd64 4:6.3.0-4d1 [1548 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 12.5 MB in 0s (88.1 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10135 files and directories currently installed.) Preparing to unpack .../libperl5.24_5.24.1-6_amd64.deb ... Unpacking libperl5.24:amd64 (5.24.1-6) over (5.24.1-4) ... Preparing to unpack .../perl_5.24.1-6_amd64.deb ... Unpacking perl (5.24.1-6) over (5.24.1-4) ... Preparing to unpack .../perl-base_5.24.1-6_amd64.deb ... Unpacking perl-base (5.24.1-6) over (5.24.1-4) ... Setting up perl-base (5.24.1-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10135 files and directories currently installed.) Preparing to unpack .../perl-modules-5.24_5.24.1-6_all.deb ... Unpacking perl-modules-5.24 (5.24.1-6) over (5.24.1-4) ... Preparing to unpack .../libapt-pkg5.0_1.5~beta1_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.5~beta1) over (1.4.6) ... Setting up libapt-pkg5.0:amd64 (1.5~beta1) ... Selecting previously unselected package libnettle6:amd64. (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 ... 10135 files and directories currently installed.) Preparing to unpack .../libnettle6_3.3-1+b1_amd64.deb ... Unpacking libnettle6:amd64 (3.3-1+b1) ... Setting up libnettle6:amd64 (3.3-1+b1) ... Selecting previously unselected package libhogweed4:amd64. (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 ... 10142 files and directories currently installed.) Preparing to unpack .../libhogweed4_3.3-1+b1_amd64.deb ... Unpacking libhogweed4:amd64 (3.3-1+b1) ... Setting up libhogweed4:amd64 (3.3-1+b1) ... Selecting previously unselected package libunistring2:amd64. (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 ... 10145 files and directories currently installed.) Preparing to unpack .../libunistring2_0.9.7-2_amd64.deb ... Unpacking libunistring2:amd64 (0.9.7-2) ... Setting up libunistring2:amd64 (0.9.7-2) ... Selecting previously unselected package libidn2-0:amd64. (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 ... 10151 files and directories currently installed.) Preparing to unpack .../libidn2-0_0.16-1+b1_amd64.deb ... Unpacking libidn2-0:amd64 (0.16-1+b1) ... Setting up libidn2-0:amd64 (0.16-1+b1) ... Selecting previously unselected package libp11-kit0:amd64. (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 ... 10161 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.23.7-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.23.7-2) ... Setting up libp11-kit0:amd64 (0.23.7-2) ... Selecting previously unselected package libtasn1-6:amd64. (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 ... 10169 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.12-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.12-2) ... Setting up libtasn1-6:amd64 (4.12-2) ... Selecting previously unselected package libgnutls30:amd64. (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 ... 10178 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.5.13-2_amd64.deb ... Unpacking libgnutls30:amd64 (3.5.13-2) ... Setting up libgnutls30:amd64 (3.5.13-2) ... (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 ... 10205 files and directories currently installed.) Preparing to unpack .../apt_1.5~beta1_amd64.deb ... Unpacking apt (1.5~beta1) over (1.4.6) ... Setting up apt (1.5~beta1) ... (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 ... 10204 files and directories currently installed.) Preparing to unpack .../debconf_1.5.62_all.deb ... Unpacking debconf (1.5.62) over (1.5.61) ... Setting up debconf (1.5.62) ... (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 ... 10204 files and directories currently installed.) Preparing to unpack .../libsystemd0_233-10_amd64.deb ... Unpacking libsystemd0:amd64 (233-10) over (233-9) ... Setting up libsystemd0:amd64 (233-10) ... (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 ... 10204 files and directories currently installed.) Preparing to unpack .../libudev1_233-10_amd64.deb ... Unpacking libudev1:amd64 (233-10) over (233-9) ... Setting up libudev1:amd64 (233-10) ... (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 ... 10204 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.229_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.229) over (0.228) ... Setting up libdebconfclient0:amd64 (0.229) ... (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 ... 10204 files and directories currently installed.) Preparing to unpack .../cpp_4%3a6.3.0-4d1_amd64.deb ... Unpacking cpp (4:6.3.0-4d1) over (4:6.3.0-4) ... Preparing to unpack .../gcc_4%3a6.3.0-4d1_amd64.deb ... Removing old gcc doc directory. Unpacking gcc (4:6.3.0-4d1) over (4:6.3.0-4) ... Preparing to unpack .../g++_4%3a6.3.0-4d1_amd64.deb ... Unpacking g++ (4:6.3.0-4d1) over (4:6.3.0-4) ... Setting up cpp (4:6.3.0-4d1) ... Setting up perl-modules-5.24 (5.24.1-6) ... Setting up libperl5.24:amd64 (5.24.1-6) ... Setting up gcc (4:6.3.0-4d1) ... Setting up perl (5.24.1-6) ... Processing triggers for libc-bin (2.24-12) ... Setting up g++ (4:6.3.0-4d1) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'abyss' packaging is maintained in the 'Git' version control system at: https://anonscm.debian.org/git/debian-med/abyss.git Please use: git clone https://anonscm.debian.org/git/debian-med/abyss.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1794 kB of source archives. Get:1 http://127.0.0.1:9999/debian unstable/main abyss 2.0.2-3 (dsc) [1742 B] Get:2 http://127.0.0.1:9999/debian unstable/main abyss 2.0.2-3 (tar) [1036 kB] Get:3 http://127.0.0.1:9999/debian unstable/main abyss 2.0.2-3 (diff) [757 kB] Fetched 1794 kB in 0s (7841 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/abyss-s2as30/abyss-2.0.2' with '<>' I: NOTICE: Log filtering will replace 'build/abyss-s2as30' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-j2TWIV/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-j2TWIV/apt_archive ./ InRelease Get:2 copy:/<>/resolver-j2TWIV/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-j2TWIV/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-j2TWIV/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-j2TWIV/apt_archive ./ Packages [433 B] Fetched 1739 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 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 778 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-j2TWIV/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [778 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 778 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10206 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 10), dh-autoreconf, python-markdown, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev Filtered Build-Depends: debhelper (>= 10), dh-autoreconf, python-markdown, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev dpkg-deb: building package 'sbuild-build-depends-abyss-dummy' in '/<>/resolver-j2TWIV/apt_archive/sbuild-build-depends-abyss-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-abyss-dummy sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-j2TWIV/apt_archive ./ InRelease Get:2 copy:/<>/resolver-j2TWIV/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-j2TWIV/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-j2TWIV/apt_archive ./ Sources [566 B] Get:5 copy:/<>/resolver-j2TWIV/apt_archive ./ Packages [643 B] Fetched 2172 B in 0s (0 B/s) Reading package lists... Reading package lists... Install abyss build dependencies (apt-based resolver) ----------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base googletest groff-base intltool-debian libarchive-zip-perl libboost-chrono1.62.0 libboost-graph-dev libboost-graph1.62-dev libboost-graph1.62.0 libboost-regex1.62.0 libboost-serialization1.62-dev libboost-serialization1.62.0 libboost-system1.62.0 libboost-test1.62-dev libboost-test1.62.0 libboost-timer1.62.0 libboost1.62-dev libcroco3 libexpat1 libfabric1 libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0 libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libpsm-infinipath1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib librdmacm1 libreadline7 libsigsegv2 libsparsehash-dev libsqlite3-0 libsqlite3-dev libssl1.1 libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool liburi-perl libxml2 m4 man-db mime-support ocl-icd-libopencl1 openmpi-common po-debconf python python-markdown python-minimal python2.7 python2.7-minimal readline-common Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff graphviz libboost1.62-doc libboost-atomic1.62-dev libboost-chrono1.62-dev libboost-context1.62-dev libboost-coroutine1.62-dev libboost-date-time1.62-dev libboost-exception1.62-dev libboost-fiber1.62-dev libboost-filesystem1.62-dev libboost-graph-parallel1.62-dev libboost-iostreams1.62-dev libboost-locale1.62-dev libboost-log1.62-dev libboost-math1.62-dev libboost-mpi1.62-dev libboost-mpi-python1.62-dev libboost-program-options1.62-dev libboost-python1.62-dev libboost-random1.62-dev libboost-regex1.62-dev libboost-signals1.62-dev libboost-system1.62-dev libboost-thread1.62-dev libboost-timer1.62-dev libboost-type-erasure1.62-dev libboost-wave1.62-dev libboost1.62-tools-dev libmpfrc++-dev libntl-dev libdata-dump-perl libhwloc-contrib-plugins libtool-doc openmpi-doc pciutils sqlite3-doc gfortran | fortran95-compiler gcj-jdk libwww-perl m4-doc less www-browser opencl-icd libmail-box-perl python-doc python-tk python-markdown-doc python2.7-doc binfmt-support readline-doc Recommended packages: curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libhttp-message-perl openmpi-bin xml-core libmail-sendmail-perl python-pygments python-yaml The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base googletest groff-base intltool-debian libarchive-zip-perl libboost-chrono1.62.0 libboost-graph-dev libboost-graph1.62-dev libboost-graph1.62.0 libboost-regex1.62.0 libboost-serialization1.62-dev libboost-serialization1.62.0 libboost-system1.62.0 libboost-test1.62-dev libboost-test1.62.0 libboost-timer1.62.0 libboost1.62-dev libcroco3 libexpat1 libfabric1 libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0 libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1 libpsm-infinipath1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib librdmacm1 libreadline7 libsigsegv2 libsparsehash-dev libsqlite3-0 libsqlite3-dev libssl1.1 libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool liburi-perl libxml2 m4 man-db mime-support ocl-icd-libopencl1 openmpi-common po-debconf python python-markdown python-minimal python2.7 python2.7-minimal readline-common sbuild-build-depends-abyss-dummy 0 upgraded, 84 newly installed, 0 to remove and 0 not upgraded. Need to get 41.4 MB of archives. After this operation, 247 MB of additional disk space will be used. Get:1 copy:/<>/resolver-j2TWIV/apt_archive ./ sbuild-build-depends-abyss-dummy 0.invalid.0 [862 B] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 groff-base amd64 1.22.3-9 [1160 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 bsdmainutils amd64 9.0.12+nmu1 [186 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libpipeline1 amd64 1.4.1-2 [27.6 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 man-db amd64 2.7.6.1-2 [1044 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libpython2.7-minimal amd64 2.7.13-2 [389 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 python2.7-minimal amd64 2.7.13-2 [1383 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 mime-support all 3.60 [36.7 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libexpat1 amd64 2.2.1-3 [85.6 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 readline-common all 7.0-3 [70.4 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 libsqlite3-0 amd64 3.16.2-5 [572 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 libssl1.1 amd64 1.1.0f-3 [1342 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 libpython2.7-stdlib amd64 2.7.13-2 [1895 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 python2.7 amd64 2.7.13-2 [285 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 python amd64 2.7.13-2 [154 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 libmagic-mgc amd64 1:5.30-1 [222 kB] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 libmagic1 amd64 1:5.30-1 [111 kB] Get:21 http://127.0.0.1:9999/debian unstable/main amd64 file amd64 1:5.30-1 [63.9 kB] Get:22 http://127.0.0.1:9999/debian unstable/main amd64 gettext-base amd64 0.19.8.1-2+b1 [122 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 libicu57 amd64 57.1-6 [7701 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-3 [715 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 libsigsegv2 amd64 2.11-1 [29.9 kB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 m4 amd64 1.4.18-1 [202 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 autoconf all 2.69-10 [338 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 autotools-dev all 20161112.1 [73.4 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 automake all 1:1.15.1-2 [736 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 autopoint all 0.19.8.1-2 [433 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 libtool all 2.4.6-2 [545 kB] Get:32 http://127.0.0.1:9999/debian unstable/main amd64 dh-autoreconf all 14 [15.9 kB] Get:33 http://127.0.0.1:9999/debian unstable/main amd64 libarchive-zip-perl all 1.59-1 [95.5 kB] Get:34 http://127.0.0.1:9999/debian unstable/main amd64 libfile-stripnondeterminism-perl all 0.035-2 [17.0 kB] Get:35 http://127.0.0.1:9999/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:36 http://127.0.0.1:9999/debian unstable/main amd64 dh-strip-nondeterminism all 0.035-2 [10.7 kB] Get:37 http://127.0.0.1:9999/debian unstable/main amd64 libglib2.0-0 amd64 2.52.3-1 [2742 kB] Get:38 http://127.0.0.1:9999/debian unstable/main amd64 libcroco3 amd64 0.6.12-1 [144 kB] Get:39 http://127.0.0.1:9999/debian unstable/main amd64 gettext amd64 0.19.8.1-2+b1 [1301 kB] Get:40 http://127.0.0.1:9999/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.4 [26.3 kB] Get:41 http://127.0.0.1:9999/debian unstable/main amd64 po-debconf all 1.0.20 [247 kB] Get:42 http://127.0.0.1:9999/debian unstable/main amd64 debhelper all 10.6.2 [968 kB] Get:43 http://127.0.0.1:9999/debian unstable/main amd64 googletest amd64 1.8.0-6 [653 kB] Get:44 http://127.0.0.1:9999/debian unstable/main amd64 libboost-system1.62.0 amd64 1.62.0+dfsg-4+b1 [32.7 kB] Get:45 http://127.0.0.1:9999/debian unstable/main amd64 libboost-chrono1.62.0 amd64 1.62.0+dfsg-4+b1 [36.3 kB] Get:46 http://127.0.0.1:9999/debian unstable/main amd64 libboost1.62-dev amd64 1.62.0+dfsg-4+b1 [7053 kB] Get:47 http://127.0.0.1:9999/debian unstable/main amd64 libboost-regex1.62.0 amd64 1.62.0+dfsg-4+b1 [288 kB] Get:48 http://127.0.0.1:9999/debian unstable/main amd64 libboost-graph1.62.0 amd64 1.62.0+dfsg-4+b1 [119 kB] Get:49 http://127.0.0.1:9999/debian unstable/main amd64 libboost-serialization1.62.0 amd64 1.62.0+dfsg-4+b1 [126 kB] Get:50 http://127.0.0.1:9999/debian unstable/main amd64 libboost-serialization1.62-dev amd64 1.62.0+dfsg-4+b1 [163 kB] Get:51 http://127.0.0.1:9999/debian unstable/main amd64 libboost-timer1.62.0 amd64 1.62.0+dfsg-4+b1 [34.8 kB] Get:52 http://127.0.0.1:9999/debian unstable/main amd64 libboost-test1.62.0 amd64 1.62.0+dfsg-4+b1 [255 kB] Get:53 http://127.0.0.1:9999/debian unstable/main amd64 libboost-test1.62-dev amd64 1.62.0+dfsg-4+b1 [301 kB] Get:54 http://127.0.0.1:9999/debian unstable/main amd64 libboost-graph1.62-dev amd64 1.62.0+dfsg-4+b1 [127 kB] Get:55 http://127.0.0.1:9999/debian unstable/main amd64 libboost-graph-dev amd64 1.62.0.1 [3510 B] Get:56 http://127.0.0.1:9999/debian unstable/main amd64 libnl-3-200 amd64 3.2.27-2 [61.5 kB] Get:57 http://127.0.0.1:9999/debian unstable/main amd64 libnl-route-3-200 amd64 3.2.27-2 [136 kB] Get:58 http://127.0.0.1:9999/debian unstable/main amd64 libibverbs1 amd64 1.2.1-2 [39.3 kB] Get:59 http://127.0.0.1:9999/debian unstable/main amd64 libpsm-infinipath1 amd64 3.3+19.g67c0807.open-3 [169 kB] Get:60 http://127.0.0.1:9999/debian unstable/main amd64 librdmacm1 amd64 1.1.0-2 [49.4 kB] Get:61 http://127.0.0.1:9999/debian unstable/main amd64 libfabric1 amd64 1.4.0-1 [259 kB] Get:62 http://127.0.0.1:9999/debian unstable/main amd64 libgfortran3 amd64 6.4.0-1 [265 kB] Get:63 http://127.0.0.1:9999/debian unstable/main amd64 libgtest-dev amd64 1.8.0-6 [5110 B] Get:64 http://127.0.0.1:9999/debian unstable/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:65 http://127.0.0.1:9999/debian unstable/main amd64 liburi-perl all 1.71-1 [88.6 kB] Get:66 http://127.0.0.1:9999/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-3 [104 kB] Get:67 http://127.0.0.1:9999/debian unstable/main amd64 libltdl7 amd64 2.4.6-2 [389 kB] Get:68 http://127.0.0.1:9999/debian unstable/main amd64 libnuma1 amd64 2.0.11-2.1 [33.3 kB] Get:69 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc5 amd64 1.11.5-1 [105 kB] Get:70 http://127.0.0.1:9999/debian unstable/main amd64 libnuma-dev amd64 2.0.11-2.1 [46.0 kB] Get:71 http://127.0.0.1:9999/debian unstable/main amd64 libltdl-dev amd64 2.4.6-2 [161 kB] Get:72 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc-dev amd64 1.11.5-1 [167 kB] Get:73 http://127.0.0.1:9999/debian unstable/main amd64 libpciaccess0 amd64 0.13.4-1+b2 [50.0 kB] Get:74 http://127.0.0.1:9999/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1 [36.8 kB] Get:75 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc-plugins amd64 1.11.5-1 [16.1 kB] Get:76 http://127.0.0.1:9999/debian unstable/main amd64 libibverbs-dev amd64 1.2.1-2 [107 kB] Get:77 http://127.0.0.1:9999/debian unstable/main amd64 libopenmpi2 amd64 2.1.1-6 [2062 kB] Get:78 http://127.0.0.1:9999/debian unstable/main amd64 openmpi-common all 2.1.1-6 [154 kB] Get:79 http://127.0.0.1:9999/debian unstable/main amd64 libopenmpi-dev amd64 2.1.1-6 [1026 kB] Get:80 http://127.0.0.1:9999/debian unstable/main amd64 libsparsehash-dev all 2.0.2-1 [76.9 kB] Get:81 http://127.0.0.1:9999/debian unstable/main amd64 libsqlite3-dev amd64 3.16.2-5 [703 kB] Get:82 http://127.0.0.1:9999/debian unstable/main amd64 libtext-markdown-perl all 1.000031-2 [34.4 kB] Get:83 http://127.0.0.1:9999/debian unstable/main amd64 libtext-multimarkdown-perl all 1.000035-1 [29.4 kB] Get:84 http://127.0.0.1:9999/debian unstable/main amd64 python-markdown all 2.6.8-1 [58.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 41.4 MB in 0s (83.0 MB/s) Selecting previously unselected package groff-base. (Reading database ... 10206 files and directories currently installed.) Preparing to unpack .../00-groff-base_1.22.3-9_amd64.deb ... Unpacking groff-base (1.22.3-9) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_9.0.12+nmu1_amd64.deb ... Unpacking bsdmainutils (9.0.12+nmu1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../02-libpipeline1_1.4.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../03-man-db_2.7.6.1-2_amd64.deb ... Unpacking man-db (2.7.6.1-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../04-libpython2.7-minimal_2.7.13-2_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.13-2) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../05-python2.7-minimal_2.7.13-2_amd64.deb ... Unpacking python2.7-minimal (2.7.13-2) ... Selecting previously unselected package python-minimal. Preparing to unpack .../06-python-minimal_2.7.13-2_amd64.deb ... Unpacking python-minimal (2.7.13-2) ... Selecting previously unselected package mime-support. Preparing to unpack .../07-mime-support_3.60_all.deb ... Unpacking mime-support (3.60) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../08-libexpat1_2.2.1-3_amd64.deb ... Unpacking libexpat1:amd64 (2.2.1-3) ... Selecting previously unselected package readline-common. Preparing to unpack .../09-readline-common_7.0-3_all.deb ... Unpacking readline-common (7.0-3) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../10-libreadline7_7.0-3_amd64.deb ... Unpacking libreadline7:amd64 (7.0-3) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../11-libsqlite3-0_3.16.2-5_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.16.2-5) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../12-libssl1.1_1.1.0f-3_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.0f-3) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../13-libpython2.7-stdlib_2.7.13-2_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.13-2) ... Selecting previously unselected package python2.7. Preparing to unpack .../14-python2.7_2.7.13-2_amd64.deb ... Unpacking python2.7 (2.7.13-2) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../15-libpython-stdlib_2.7.13-2_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.13-2) ... Setting up libpython2.7-minimal:amd64 (2.7.13-2) ... Setting up python2.7-minimal (2.7.13-2) ... Setting up python-minimal (2.7.13-2) ... Selecting previously unselected package python. (Reading database ... 11586 files and directories currently installed.) Preparing to unpack .../00-python_2.7.13-2_amd64.deb ... Unpacking python (2.7.13-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.30-1_amd64.deb ... Unpacking libmagic-mgc (1:5.30-1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../02-libmagic1_1%3a5.30-1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.30-1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.30-1_amd64.deb ... Unpacking file (1:5.30-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.19.8.1-2+b1_amd64.deb ... Unpacking gettext-base (0.19.8.1-2+b1) ... Selecting previously unselected package libicu57:amd64. Preparing to unpack .../05-libicu57_57.1-6_amd64.deb ... Unpacking libicu57:amd64 (57.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../06-libxml2_2.9.4+dfsg1-3_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-3) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../07-libsigsegv2_2.11-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.11-1) ... Selecting previously unselected package m4. Preparing to unpack .../08-m4_1.4.18-1_amd64.deb ... Unpacking m4 (1.4.18-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../09-autoconf_2.69-10_all.deb ... Unpacking autoconf (2.69-10) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../10-autotools-dev_20161112.1_all.deb ... Unpacking autotools-dev (20161112.1) ... Selecting previously unselected package automake. Preparing to unpack .../11-automake_1%3a1.15.1-2_all.deb ... Unpacking automake (1:1.15.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../12-autopoint_0.19.8.1-2_all.deb ... Unpacking autopoint (0.19.8.1-2) ... Selecting previously unselected package libtool. Preparing to unpack .../13-libtool_2.4.6-2_all.deb ... Unpacking libtool (2.4.6-2) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../14-dh-autoreconf_14_all.deb ... Unpacking dh-autoreconf (14) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../15-libarchive-zip-perl_1.59-1_all.deb ... Unpacking libarchive-zip-perl (1.59-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../16-libfile-stripnondeterminism-perl_0.035-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (0.035-2) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../17-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../18-dh-strip-nondeterminism_0.035-2_all.deb ... Unpacking dh-strip-nondeterminism (0.035-2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../19-libglib2.0-0_2.52.3-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.52.3-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../20-libcroco3_0.6.12-1_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-1) ... Selecting previously unselected package gettext. Preparing to unpack .../21-gettext_0.19.8.1-2+b1_amd64.deb ... Unpacking gettext (0.19.8.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../22-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../23-po-debconf_1.0.20_all.deb ... Unpacking po-debconf (1.0.20) ... Selecting previously unselected package debhelper. Preparing to unpack .../24-debhelper_10.6.2_all.deb ... Unpacking debhelper (10.6.2) ... Selecting previously unselected package googletest:amd64. Preparing to unpack .../25-googletest_1.8.0-6_amd64.deb ... Unpacking googletest:amd64 (1.8.0-6) ... Selecting previously unselected package libboost-system1.62.0:amd64. Preparing to unpack .../26-libboost-system1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-system1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-chrono1.62.0:amd64. Preparing to unpack .../27-libboost-chrono1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-chrono1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost1.62-dev:amd64. Preparing to unpack .../28-libboost1.62-dev_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-regex1.62.0:amd64. Preparing to unpack .../29-libboost-regex1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-regex1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-graph1.62.0:amd64. Preparing to unpack .../30-libboost-graph1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-graph1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-serialization1.62.0:amd64. Preparing to unpack .../31-libboost-serialization1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-serialization1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-serialization1.62-dev:amd64. Preparing to unpack .../32-libboost-serialization1.62-dev_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-serialization1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-timer1.62.0:amd64. Preparing to unpack .../33-libboost-timer1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-timer1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-test1.62.0:amd64. Preparing to unpack .../34-libboost-test1.62.0_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-test1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-test1.62-dev:amd64. Preparing to unpack .../35-libboost-test1.62-dev_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-test1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-graph1.62-dev:amd64. Preparing to unpack .../36-libboost-graph1.62-dev_1.62.0+dfsg-4+b1_amd64.deb ... Unpacking libboost-graph1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Selecting previously unselected package libboost-graph-dev:amd64. Preparing to unpack .../37-libboost-graph-dev_1.62.0.1_amd64.deb ... Unpacking libboost-graph-dev:amd64 (1.62.0.1) ... Selecting previously unselected package libnl-3-200:amd64. Preparing to unpack .../38-libnl-3-200_3.2.27-2_amd64.deb ... Unpacking libnl-3-200:amd64 (3.2.27-2) ... Selecting previously unselected package libnl-route-3-200:amd64. Preparing to unpack .../39-libnl-route-3-200_3.2.27-2_amd64.deb ... Unpacking libnl-route-3-200:amd64 (3.2.27-2) ... Selecting previously unselected package libibverbs1. Preparing to unpack .../40-libibverbs1_1.2.1-2_amd64.deb ... Unpacking libibverbs1 (1.2.1-2) ... Selecting previously unselected package libpsm-infinipath1. Preparing to unpack .../41-libpsm-infinipath1_3.3+19.g67c0807.open-3_amd64.deb ... Unpacking libpsm-infinipath1 (3.3+19.g67c0807.open-3) ... Selecting previously unselected package librdmacm1. Preparing to unpack .../42-librdmacm1_1.1.0-2_amd64.deb ... Unpacking librdmacm1 (1.1.0-2) ... Selecting previously unselected package libfabric1. Preparing to unpack .../43-libfabric1_1.4.0-1_amd64.deb ... Unpacking libfabric1 (1.4.0-1) ... Selecting previously unselected package libgfortran3:amd64. Preparing to unpack .../44-libgfortran3_6.4.0-1_amd64.deb ... Unpacking libgfortran3:amd64 (6.4.0-1) ... Selecting previously unselected package libgtest-dev:amd64. Preparing to unpack .../45-libgtest-dev_1.8.0-6_amd64.deb ... Unpacking libgtest-dev:amd64 (1.8.0-6) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../46-libhtml-tagset-perl_3.20-3_all.deb ... Unpacking libhtml-tagset-perl (3.20-3) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../47-liburi-perl_1.71-1_all.deb ... Unpacking liburi-perl (1.71-1) ... Selecting previously unselected package libhtml-parser-perl. Preparing to unpack .../48-libhtml-parser-perl_3.72-3_amd64.deb ... Unpacking libhtml-parser-perl (3.72-3) ... Selecting previously unselected package libltdl7:amd64. Preparing to unpack .../49-libltdl7_2.4.6-2_amd64.deb ... Unpacking libltdl7:amd64 (2.4.6-2) ... Selecting previously unselected package libnuma1:amd64. Preparing to unpack .../50-libnuma1_2.0.11-2.1_amd64.deb ... Unpacking libnuma1:amd64 (2.0.11-2.1) ... Selecting previously unselected package libhwloc5:amd64. Preparing to unpack .../51-libhwloc5_1.11.5-1_amd64.deb ... Unpacking libhwloc5:amd64 (1.11.5-1) ... Selecting previously unselected package libnuma-dev:amd64. Preparing to unpack .../52-libnuma-dev_2.0.11-2.1_amd64.deb ... Unpacking libnuma-dev:amd64 (2.0.11-2.1) ... Selecting previously unselected package libltdl-dev:amd64. Preparing to unpack .../53-libltdl-dev_2.4.6-2_amd64.deb ... Unpacking libltdl-dev:amd64 (2.4.6-2) ... Selecting previously unselected package libhwloc-dev:amd64. Preparing to unpack .../54-libhwloc-dev_1.11.5-1_amd64.deb ... Unpacking libhwloc-dev:amd64 (1.11.5-1) ... Selecting previously unselected package libpciaccess0:amd64. Preparing to unpack .../55-libpciaccess0_0.13.4-1+b2_amd64.deb ... Unpacking libpciaccess0:amd64 (0.13.4-1+b2) ... Selecting previously unselected package ocl-icd-libopencl1:amd64. Preparing to unpack .../56-ocl-icd-libopencl1_2.2.11-1_amd64.deb ... Unpacking ocl-icd-libopencl1:amd64 (2.2.11-1) ... Selecting previously unselected package libhwloc-plugins. Preparing to unpack .../57-libhwloc-plugins_1.11.5-1_amd64.deb ... Unpacking libhwloc-plugins (1.11.5-1) ... Selecting previously unselected package libibverbs-dev. Preparing to unpack .../58-libibverbs-dev_1.2.1-2_amd64.deb ... Unpacking libibverbs-dev (1.2.1-2) ... Selecting previously unselected package libopenmpi2:amd64. Preparing to unpack .../59-libopenmpi2_2.1.1-6_amd64.deb ... Unpacking libopenmpi2:amd64 (2.1.1-6) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../60-openmpi-common_2.1.1-6_all.deb ... Unpacking openmpi-common (2.1.1-6) ... Selecting previously unselected package libopenmpi-dev. Preparing to unpack .../61-libopenmpi-dev_2.1.1-6_amd64.deb ... Unpacking libopenmpi-dev (2.1.1-6) ... Selecting previously unselected package libsparsehash-dev. Preparing to unpack .../62-libsparsehash-dev_2.0.2-1_all.deb ... Unpacking libsparsehash-dev (2.0.2-1) ... Selecting previously unselected package libsqlite3-dev:amd64. Preparing to unpack .../63-libsqlite3-dev_3.16.2-5_amd64.deb ... Unpacking libsqlite3-dev:amd64 (3.16.2-5) ... Selecting previously unselected package libtext-markdown-perl. Preparing to unpack .../64-libtext-markdown-perl_1.000031-2_all.deb ... Unpacking libtext-markdown-perl (1.000031-2) ... Selecting previously unselected package libtext-multimarkdown-perl. Preparing to unpack .../65-libtext-multimarkdown-perl_1.000035-1_all.deb ... Unpacking libtext-multimarkdown-perl (1.000035-1) ... Selecting previously unselected package python-markdown. Preparing to unpack .../66-python-markdown_2.6.8-1_all.deb ... Unpacking python-markdown (2.6.8-1) ... Selecting previously unselected package sbuild-build-depends-abyss-dummy. Preparing to unpack .../67-sbuild-build-depends-abyss-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-abyss-dummy (0.invalid.0) ... Setting up libhtml-tagset-perl (3.20-3) ... Setting up libboost-serialization1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up readline-common (7.0-3) ... Setting up libsparsehash-dev (2.0.2-1) ... Setting up libexpat1:amd64 (2.2.1-3) ... Setting up libarchive-zip-perl (1.59-1) ... Setting up mime-support (3.60) ... Setting up libtext-markdown-perl (1.000031-2) ... Setting up libboost1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:amd64 (2.11-1) ... Setting up libreadline7:amd64 (7.0-3) ... Setting up libnuma1:amd64 (2.0.11-2.1) ... Setting up libgfortran3:amd64 (6.4.0-1) ... Setting up groff-base (1.22.3-9) ... Setting up libglib2.0-0:amd64 (2.52.3-1) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-2+b1) ... Setting up libpipeline1:amd64 (1.4.1-2) ... Setting up m4 (1.4.18-1) ... Setting up libicu57:amd64 (57.1-6) ... Setting up libboost-serialization1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-3) ... Setting up libmagic-mgc (1:5.30-1) ... Setting up libmagic1:amd64 (1:5.30-1) ... Setting up libcroco3:amd64 (0.6.12-1) ... Setting up libpsm-infinipath1 (3.3+19.g67c0807.open-3) ... Setting up openmpi-common (2.1.1-6) ... Processing triggers for libc-bin (2.24-12) ... Setting up autotools-dev (20161112.1) ... Setting up liburi-perl (1.71-1) ... Setting up libssl1.1:amd64 (1.1.0f-3) ... Setting up libltdl7:amd64 (2.4.6-2) ... Setting up libhtml-parser-perl (3.72-3) ... Setting up libsqlite3-0:amd64 (3.16.2-5) ... Setting up libpciaccess0:amd64 (0.13.4-1+b2) ... Setting up libnuma-dev:amd64 (2.0.11-2.1) ... Setting up ocl-icd-libopencl1:amd64 (2.2.11-1) ... Setting up bsdmainutils (9.0.12+nmu1) ... 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 libnl-3-200:amd64 (3.2.27-2) ... Setting up libpython2.7-stdlib:amd64 (2.7.13-2) ... Setting up autopoint (0.19.8.1-2) ... Setting up libboost-system1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up libfile-stripnondeterminism-perl (0.035-2) ... Setting up libltdl-dev:amd64 (2.4.6-2) ... Setting up gettext (0.19.8.1-2+b1) ... Setting up libsqlite3-dev:amd64 (3.16.2-5) ... Setting up libboost-regex1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up python2.7 (2.7.13-2) ... Setting up libnl-route-3-200:amd64 (3.2.27-2) ... Setting up autoconf (2.69-10) ... Setting up file (1:5.30-1) ... Setting up libhwloc5:amd64 (1.11.5-1) ... Setting up libtext-multimarkdown-perl (1.000035-1) ... Setting up libpython-stdlib:amd64 (2.7.13-2) ... Setting up libhwloc-plugins (1.11.5-1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up automake (1:1.15.1-2) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.6.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python (2.7.13-2) ... Setting up libboost-chrono1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up python-markdown (2.6.8-1) ... Setting up libtool (2.4.6-2) ... Setting up libibverbs1 (1.2.1-2) ... Setting up libboost-timer1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up po-debconf (1.0.20) ... Setting up libhwloc-dev:amd64 (1.11.5-1) ... Setting up libboost-graph1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up librdmacm1 (1.1.0-2) ... Setting up googletest:amd64 (1.8.0-6) ... Setting up libboost-test1.62.0:amd64 (1.62.0+dfsg-4+b1) ... Setting up libgtest-dev:amd64 (1.8.0-6) ... Setting up libibverbs-dev (1.2.1-2) ... Setting up libfabric1 (1.4.0-1) ... Setting up libboost-test1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Setting up libopenmpi2:amd64 (2.1.1-6) ... Setting up libopenmpi-dev (2.1.1-6) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/mpi (mpi) in auto mode Setting up libboost-graph1.62-dev:amd64 (1.62.0+dfsg-4+b1) ... Setting up libboost-graph-dev:amd64 (1.62.0.1) ... Setting up dh-autoreconf (14) ... Setting up dh-strip-nondeterminism (0.035-2) ... Setting up debhelper (10.6.2) ... Setting up sbuild-build-depends-abyss-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.24-12) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-2-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.28-6 dpkg-dev_1.18.24 g++-6_6.4.0-1 gcc-6_6.4.0-1 libc6-dev_2.24-12 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 linux-libc-dev_4.11.6-1 Package versions: adduser_3.115 apt_1.5~beta1 autoconf_2.69-10 automake_1:1.15.1-2 autopoint_0.19.8.1-2 autotools-dev_20161112.1 base-files_10 base-passwd_3.5.43 bash_4.4-5 binutils_2.28-6 bsdmainutils_9.0.12+nmu1 bsdutils_1:2.29.2-1 build-essential_12.3 bzip2_1.0.6-8.1 clang-4.0_1:4.0.1-1 coreutils_8.26-3 cpp_4:6.3.0-4d1 cpp-6_6.4.0-1 dash_0.5.8-2.4 debconf_1.5.62 debfoster_2.7-2.1+b1 debhelper_10.6.2 debian-archive-keyring_2017.5 debianutils_4.8.1.1 dh-autoreconf_14 dh-strip-nondeterminism_0.035-2 diffutils_1:3.5-3 dpkg_1.18.24 dpkg-dev_1.18.24 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 eatmydata_105-5 fakeroot_1.21-3.1 file_1:5.30-1 findutils_4.6.0+git+20170606-2 g++_4:6.3.0-4d1 g++-6_6.4.0-1 gcc_4:6.3.0-4d1 gcc-6_6.4.0-1 gcc-6-base_6.4.0-1 gcc-7-base_7.1.0-9 gettext_0.19.8.1-2+b1 gettext-base_0.19.8.1-2+b1 googletest_1.8.0-6 gpgv_2.1.18-8 grep_2.27-2 groff-base_1.22.3-9 gzip_1.6-5+b1 hostname_3.18+b1 init-system-helpers_1.48 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.5~beta1 libarchive-zip-perl_1.59-1 libasan3_6.4.0-1 libatomic1_7.1.0-9 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.7.7-1 libaudit1_1:2.7.7-1+b1 libblkid1_2.29.2-1 libboost-chrono1.62.0_1.62.0+dfsg-4+b1 libboost-graph-dev_1.62.0.1 libboost-graph1.62-dev_1.62.0+dfsg-4+b1 libboost-graph1.62.0_1.62.0+dfsg-4+b1 libboost-regex1.62.0_1.62.0+dfsg-4+b1 libboost-serialization1.62-dev_1.62.0+dfsg-4+b1 libboost-serialization1.62.0_1.62.0+dfsg-4+b1 libboost-system1.62.0_1.62.0+dfsg-4+b1 libboost-test1.62-dev_1.62.0+dfsg-4+b1 libboost-test1.62.0_1.62.0+dfsg-4+b1 libboost-timer1.62.0_1.62.0+dfsg-4+b1 libboost1.62-dev_1.62.0+dfsg-4+b1 libbsd0_0.8.5-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-12 libc-dev-bin_2.24-12 libc6_2.24-12 libc6-dev_2.24-12 libcap-ng0_0.7.7-3+b1 libcc1-0_7.1.0-9 libcilkrts5_7.1.0-9 libclang-common-4.0-dev_1:4.0.1-1 libclang1-4.0_1:4.0.1-1 libcomerr2_1.43.4-2 libcroco3_0.6.12-1 libdb5.3_5.3.28-12+b1 libdebconfclient0_0.229 libdpkg-perl_1.18.24 libeatmydata1_105-5 libedit2_3.1-20170329-1 libexpat1_2.2.1-3 libfabric1_1.4.0-1 libfakeroot_1.21-3.1 libfdisk1_2.29.2-1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.035-2 libgc1c2_1:7.4.2-8 libgcc-6-dev_6.4.0-1 libgcc1_1:7.1.0-9 libgcrypt20_1.7.8-1 libgdbm3_1.8.3-14 libgfortran3_6.4.0-1 libglib2.0-0_2.52.3-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.13-2 libgomp1_7.1.0-9 libgpg-error0_1.27-3 libgtest-dev_1.8.0-6 libhogweed4_3.3-1+b1 libhtml-parser-perl_3.72-3 libhtml-tagset-perl_3.20-3 libhwloc-dev_1.11.5-1 libhwloc-plugins_1.11.5-1 libhwloc5_1.11.5-1 libibverbs-dev_1.2.1-2 libibverbs1_1.2.1-2 libicu57_57.1-6 libidn2-0_0.16-1+b1 libisl15_0.18-1 libitm1_7.1.0-9 libjsoncpp1_1.7.4-3 libllvm4.0_1:4.0.1-1 liblsan0_7.1.0-9 libltdl-dev_2.4.6-2 libltdl7_2.4.6-2 liblz4-1_0.0~r131-2+b1 liblzma5_5.2.2-1.2+b1 libmagic-mgc_1:5.30-1 libmagic1_1:5.30-1 libmount1_2.29.2-1 libmpc3_1.0.3-1+b2 libmpfr4_3.1.5-1 libmpx2_7.1.0-9 libncurses5_6.0+20161126-1 libncursesw5_6.0+20161126-1 libnettle6_3.3-1+b1 libnl-3-200_3.2.27-2 libnl-route-3-200_3.2.27-2 libnuma-dev_2.0.11-2.1 libnuma1_2.0.11-2.1 libobjc-6-dev_6.4.0-1 libobjc4_7.1.0-9 libopenmpi-dev_2.1.1-6 libopenmpi2_2.1.1-6 libp11-kit0_0.23.7-2 libpam-modules_1.1.8-3.6 libpam-modules-bin_1.1.8-3.6 libpam-runtime_1.1.8-3.6 libpam0g_1.1.8-3.6 libpciaccess0_0.13.4-1+b2 libpcre3_2:8.39-3 libperl5.24_5.24.1-6 libpipeline1_1.4.1-2 libpsm-infinipath1_3.3+19.g67c0807.open-3 libpython-stdlib_2.7.13-2 libpython2.7-minimal_2.7.13-2 libpython2.7-stdlib_2.7.13-2 libquadmath0_7.1.0-9 librdmacm1_1.1.0-2 libreadline7_7.0-3 libselinux1_2.6-3+b2 libsemanage-common_2.6-2 libsemanage1_2.6-2+b1 libsepol1_2.6-2 libsigsegv2_2.11-1 libsmartcols1_2.29.2-1 libsparsehash-dev_2.0.2-1 libsqlite3-0_3.16.2-5 libsqlite3-dev_3.16.2-5 libss2_1.43.4-2 libssl1.1_1.1.0f-3 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 libsystemd0_233-10 libtasn1-6_4.12-2 libtext-markdown-perl_1.000031-2 libtext-multimarkdown-perl_1.000035-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20161126-1 libtool_2.4.6-2 libtsan0_7.1.0-9 libubsan0_7.1.0-9 libudev1_233-10 libunistring2_0.9.7-2 liburi-perl_1.71-1 libustr-1.0-1_1.0.4-6 libuuid1_2.29.2-1 libxml2_2.9.4+dfsg1-3 linux-libc-dev_4.11.6-1 login_1:4.4-4.1 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17+b3 mime-support_3.60 mount_2.29.2-1 multiarch-support_2.24-12 ncurses-base_6.0+20161126-1 ncurses-bin_6.0+20161126-1 ocl-icd-libopencl1_2.2.11-1 openmpi-common_2.1.1-6 passwd_1:4.4-4.1 patch_2.7.5-1+b2 perl_5.24.1-6 perl-base_5.24.1-6 perl-modules-5.24_5.24.1-6 po-debconf_1.0.20 python_2.7.13-2 python-markdown_2.6.8-1 python-minimal_2.7.13-2 python2.7_2.7.13-2 python2.7-minimal_2.7.13-2 readline-common_7.0-3 sbuild-build-depends-abyss-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9 sysvinit-utils_2.88dsf-59.9 tar_1.29b-1.1 util-linux_2.29.2-1 xz-utils_5.2.2-1.2+b1 zlib1g_1:1.2.8.dfsg-5 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Jul 1 00:18:01 2017 UTC gpgv: using RSA key 8451F9178172E7E2DC73F79551F84A8FECCA7E09 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./abyss_2.0.2-3.dsc dpkg-source: info: extracting abyss in /<> dpkg-source: info: unpacking abyss_2.0.2.orig.tar.gz dpkg-source: info: unpacking abyss_2.0.2-3.debian.tar.xz dpkg-source: info: applying abyss-pe.patch dpkg-source: info: applying abyss-32-bit.patch dpkg-source: info: applying fix_bash_script.patch dpkg-source: info: applying big_endian.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX LOGNAME=user42 PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1001 SCHROOT_GROUP=user42 SCHROOT_SESSION_ID=unstable-amd64-sbuild-1970fde9-e2c4-4792-bdfa-a26b8fb7c8eb SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package abyss dpkg-buildpackage: info: source version 2.0.2-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nadiya Sitdykova dpkg-source --before-build abyss-2.0.2 dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with autoreconf dh_testdir dh_auto_clean dh_autoreconf_clean dh_clean debian/rules build-arch dh build-arch --with autoreconf dh_testdir -a dh_update_autotools_config -a dh_autoreconf -a configure.ac:11: installing './compile' configure.ac:161: installing './config.guess' configure.ac:161: installing './config.sub' configure.ac:5: installing './install-sh' configure.ac:5: installing './missing' ABYSS/Makefile.am: installing './depcomp' parallel-tests: installing './test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- --with-mpi=/usr/lib/openmpi ./configure --build=x86_64-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/x86_64-linux-gnu --libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --with-mpi=/usr/lib/openmpi configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gawk... (cached) mawk checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for ranlib... ranlib checking for ghc... no checking for ghc-pkg... no ./configure: line 5332: : command not found checking for pandoc... no checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for ANSI C header files... (cached) yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for inline... inline checking for ptrdiff_t... yes checking for mode_t... yes checking for pid_t... yes checking for size_t... yes checking for ssize_t... yes checking for int64_t... yes checking for uint8_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for std::hash... no checking for std::tr1::hash... yes checking for std::tr1::tuple... yes checking for dup2... yes checking for gethostname... yes checking for getopt_long... yes checking for getpagesize... yes checking for memset... yes checking for strdup... yes checking for strerror... yes checking for strtoul... yes checking vfork.h usability... no checking vfork.h presence... no checking for vfork.h... no checking for fork... yes checking for vfork... yes checking for working fork... yes checking for working vfork... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for working memcmp... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... yes checking for _doprnt... no checking whether HOST_NAME_MAX is declared... yes checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking if compiler needs -Werror to reject unknown flags... yes checking for the pthreads library -lpthreads... no checking whether pthreads work without any flags... no checking whether pthreads work with -Kthread... no checking whether pthreads work with -kthread... no checking for the pthreads library -llthread... no checking whether pthreads work with -pthread... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking mpi.h usability... no checking mpi.h presence... no checking for mpi.h... no checking for MPI_Init in -lmpi... yes checking for sqrt in -lm... yes checking for pow... yes checking for sqrt... yes checking for ceilf... yes checking for dlsym in -ldl... yes checking how to run the C++ preprocessor... g++ -E checking functional usability... yes checking functional presence... yes checking for functional... yes checking tr1/functional usability... yes checking tr1/functional presence... yes checking for tr1/functional... yes checking boost/functional/hash.hpp usability... yes checking boost/functional/hash.hpp presence... yes checking for boost/functional/hash.hpp... yes checking boost/property_map/property_map.hpp usability... yes checking boost/property_map/property_map.hpp presence... yes checking for boost/property_map/property_map.hpp... yes checking google/sparse_hash_map usability... yes checking google/sparse_hash_map presence... yes checking for google/sparse_hash_map... yes checking unordered_map usability... no checking unordered_map presence... no checking for unordered_map... no checking tr1/unordered_map usability... yes checking tr1/unordered_map presence... yes checking for tr1/unordered_map... yes checking unordered_set usability... no checking unordered_set presence... no checking for unordered_set... no checking tr1/unordered_set usability... yes checking tr1/unordered_set presence... yes checking for tr1/unordered_set... yes checking boost/unordered_set.hpp usability... yes checking boost/unordered_set.hpp presence... yes checking for boost/unordered_set.hpp... yes checking sqlite3.h usability... yes checking sqlite3.h presence... yes checking for sqlite3.h... yes checking for main in -lsqlite3... yes checking for g++ option to support OpenMP... unsupported checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating ABYSS/Makefile config.status: creating Align/Makefile config.status: creating Assembly/Makefile config.status: creating Common/Makefile config.status: creating DataLayer/Makefile config.status: creating FMIndex/Makefile config.status: creating Graph/Makefile config.status: creating Parallel/Makefile config.status: creating bin/Makefile config.status: creating doc/Makefile config.status: creating dialign/Makefile config.status: creating kmerprint/Makefile config.status: creating AdjList/Makefile config.status: creating Konnector/Makefile config.status: creating DAssembler/Makefile config.status: creating DistanceEst/Makefile config.status: creating Layout/Makefile config.status: creating Map/Makefile config.status: creating Misc/Makefile config.status: creating Overlap/Makefile config.status: creating PopBubbles/Makefile config.status: creating Scaffold/Makefile config.status: creating SimpleGraph/Makefile config.status: creating MergePaths/Makefile config.status: creating KAligner/Makefile config.status: creating PairedDBG/Makefile config.status: creating ParseAligns/Makefile config.status: creating PathOverlap/Makefile config.status: creating Consensus/Makefile config.status: creating FilterGraph/Makefile config.status: creating GapFiller/Makefile config.status: creating Sealer/Makefile config.status: creating lib/gtest-1.7.0/Makefile config.status: creating Unittest/Makefile config.status: creating LogKmerCount/Makefile config.status: creating Bloom/Makefile config.status: creating BloomDBG/Makefile config.status: creating DataBase/Makefile config.status: creating lib/bloomfilter/Makefile config.status: creating lib/rolling-hash/Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build make -j16 make[2]: Entering directory '/<>' make all-recursive make[3]: Entering directory '/<>' Making all in bin make[4]: Entering directory '/<>/bin' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/bin' Making all in doc make[4]: Entering directory '/<>/doc' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/doc' Making all in Common make[4]: Entering directory '/<>/Common' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-ContigID.o `test -f 'ContigID.cpp' || echo './'`ContigID.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Fcontrol.o `test -f 'Fcontrol.cpp' || echo './'`Fcontrol.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Histogram.o `test -f 'Histogram.cpp' || echo './'`Histogram.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Kmer.o `test -f 'Kmer.cpp' || echo './'`Kmer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Log.o `test -f 'Log.cpp' || echo './'`Log.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Options.o `test -f 'Options.cpp' || echo './'`Options.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Sequence.o `test -f 'Sequence.cpp' || echo './'`Sequence.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-SignalHandler.o `test -f 'SignalHandler.cpp' || echo './'`SignalHandler.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Timer.o `test -f 'Timer.cpp' || echo './'`Timer.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Uncompress.o `test -f 'Uncompress.cpp' || echo './'`Uncompress.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-city.o `test -f 'city.cc' || echo './'`city.cc rm -f libcommon.a ar cru libcommon.a libcommon_a-ContigID.o libcommon_a-Fcontrol.o libcommon_a-Histogram.o libcommon_a-Kmer.o libcommon_a-Log.o libcommon_a-Options.o libcommon_a-Sequence.o libcommon_a-SignalHandler.o libcommon_a-Timer.o libcommon_a-Uncompress.o libcommon_a-city.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcommon.a make[4]: Leaving directory '/<>/Common' Making all in Graph make[4]: Entering directory '/<>/Graph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_gc-gc.o `test -f 'gc.cc' || echo './'`gc.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_todot-todot.o `test -f 'todot.cc' || echo './'`todot.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-gc abyss_gc-gc.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L. -Wl,-z,relro -Wl,-z,now -o abyss-todot abyss_todot-todot.o ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Graph' Making all in DataLayer make[4]: Entering directory '/<>/DataLayer' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdatalayer_a-FastaReader.o `test -f 'FastaReader.cpp' || echo './'`FastaReader.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdatalayer_a-FastaWriter.o `test -f 'FastaWriter.cpp' || echo './'`FastaWriter.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fac-fac.o `test -f 'fac.cc' || echo './'`fac.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_tofastq-abyss-tofastq.o `test -f 'abyss-tofastq.cc' || echo './'`abyss-tofastq.cc rm -f libdatalayer.a ar cru libdatalayer.a libdatalayer_a-FastaReader.o libdatalayer_a-FastaWriter.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdatalayer.a g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-fac abyss_fac-fac.o libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-tofastq abyss_tofastq-abyss-tofastq.o libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DataLayer' Making all in DataBase make[4]: Entering directory '/<>/DataBase' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdb_a-DB.o `test -f 'DB.cc' || echo './'`DB.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_db_csv-DB.o `test -f 'DB.cc' || echo './'`DB.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_db_csv-db-csv.o `test -f 'db-csv.cc' || echo './'`db-csv.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-db-csv abyss_db_csv-DB.o abyss_db_csv-db-csv.o -lsqlite3 -ldl -lm rm -f libdb.a ar cru libdb.a libdb_a-DB.o ../Common/libcommon.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdb.a make[4]: Leaving directory '/<>/DataBase' Making all in FMIndex make[4]: Entering directory '/<>/FMIndex' g++ -DHAVE_CONFIG_H -I. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libfmindex_a-bit_array.o `test -f 'bit_array.cc' || echo './'`bit_array.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_count-count.o `test -f 'count.cc' || echo './'`count.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_dawg-abyss-dawg.o `test -f 'abyss-dawg.cc' || echo './'`abyss-dawg.cc rm -f libfmindex.a ar cru libfmindex.a libfmindex_a-bit_array.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libfmindex.a g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-count abyss_count-count.o libfmindex.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-dawg abyss_dawg-abyss-dawg.o libfmindex.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/FMIndex' Making all in Assembly make[4]: Entering directory '/<>/Assembly' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libassembly_a-AssemblyAlgorithms.o `test -f 'AssemblyAlgorithms.cc' || echo './'`AssemblyAlgorithms.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libassembly_a-Options.o `test -f 'Options.cc' || echo './'`Options.cc rm -f libassembly.a ar cru libassembly.a libassembly_a-AssemblyAlgorithms.o libassembly_a-Options.o ../Common/libcommon.a ar: `u' modifier ignored since `D' is the default (see `U') ranlib libassembly.a make[4]: Leaving directory '/<>/Assembly' Making all in dialign make[4]: Entering directory '/<>/dialign' gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o alig.o alig.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o assemble.o assemble.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o diag.o diag.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o io.o io.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o orf.o orf.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o parameters.o parameters.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o prob.o prob.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o translate.o translate.c gcc -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o museq.o museq.c io.c:270:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf( fp, "%i", &is); ^~~~~~ ~~~~~~~~~~~~~ io.c:282:5: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf(fp, "%s\n", rline); ^~~~~~ ~~~~~~~~~~~~~~~~~ io.c:371:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf( fp, "%li %li %Le\n", &ti,&tscr,&weight ); ^~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ museq.c:168:2: warning: implicit declaration of function 'free_diag' is invalid in C99 [-Wimplicit-function-declaration] free_diag(adcol.diags[i]); ^ museq.c:278:27: warning: implicit declaration of function 'free_alignment' is invalid in C99 [-Wimplicit-function-declaration] if(! para->FAST_MODE) free_alignment(algn); ^ diag.c:739:9: warning: equality comparison result unused [-Wunused-comparison] sdg == NULL; ~~~~^~~~~~~ diag.c:739:9: note: use '=' to turn this equality comparison into an assignment sdg == NULL; ^~ = assemble.c:37:32: warning: inline function 'find_eqc' is not defined [-Wundefined-inline] extern inline struct algn_pos *find_eqc(struct algn_pos **ap, int seqnum, int pos); ^ assemble.c:115:9: note: used here tap = find_eqc(ap, s1, sp1); ^ assemble.c:13:20: warning: inline function 'calc_weight' is not defined [-Wundefined-inline] extern inline void calc_weight(struct diag* dg, struct scr_matrix* smatrix, ^ assemble.c:459:4: note: used here calc_weight(dg, smatrix, pdist); ^ assemble.c:40:20: warning: inline function 'align_diag' is not defined [-Wundefined-inline] extern inline char align_diag(struct alignment *algn, struct scr_matrix *smatrix, struct diag* dg); ^ assemble.c:532:24: note: used here alignedSomething = align_diag(algn, smatrix, dg) || alignedSomething; ^ 2 warnings generated. 3 warnings generated. 3 warnings generated. 1 warning generated. rm -f libdialign.a ar cru libdialign.a alig.o assemble.o diag.o io.o orf.o parameters.o prob.o translate.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libdialign.a gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o dialign museq.o libdialign.a -ldl -lm make[4]: Leaving directory '/<>/dialign' Making all in Align make[4]: Entering directory '/<>/Align' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-alignGlobal.o `test -f 'alignGlobal.cc' || echo './'`alignGlobal.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-dialign.o `test -f 'dialign.cpp' || echo './'`dialign.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-dna_diag_prob.o `test -f 'dna_diag_prob.cc' || echo './'`dna_diag_prob.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-smith_waterman.o `test -f 'smith_waterman.cpp' || echo './'`smith_waterman.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_align-align.o `test -f 'align.cc' || echo './'`align.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_mergepairs-mergepairs.o `test -f 'mergepairs.cc' || echo './'`mergepairs.cc rm -f libalign.a ar cru libalign.a libalign_a-alignGlobal.o libalign_a-dialign.o libalign_a-dna_diag_prob.o libalign_a-smith_waterman.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libalign.a g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-align abyss_align-align.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-mergepairs abyss_mergepairs-mergepairs.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Align' Making all in ABYSS make[4]: Entering directory '/<>/ABYSS' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS-abyss.o `test -f 'abyss.cc' || echo './'`abyss.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o ABYSS ABYSS-abyss.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/ABYSS' Making all in Bloom make[4]: Entering directory '/<>/Bloom' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_bloom-bloom.o `test -f 'bloom.cc' || echo './'`bloom.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-bloom abyss_bloom-bloom.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Bloom' Making all in BloomDBG make[4]: Entering directory '/<>/BloomDBG' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_bloom_dbg-bloom-dbg.o `test -f 'bloom-dbg.cc' || echo './'`bloom-dbg.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-bloom-dbg abyss_bloom_dbg-bloom-dbg.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/BloomDBG' Making all in Konnector make[4]: Entering directory '/<>/Konnector' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o konnector-konnector.o `test -f 'konnector.cc' || echo './'`konnector.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o konnector konnector-konnector.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Konnector' Making all in Consensus make[4]: Entering directory '/<>/Consensus' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Consensus-Consensus.o `test -f 'Consensus.cpp' || echo './'`Consensus.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o Consensus Consensus-Consensus.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Consensus' Making all in DAssembler make[4]: Entering directory '/<>/DAssembler' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DAssembler-DAssembler.o `test -f 'DAssembler.cpp' || echo './'`DAssembler.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DAssembler-RotatedRead.o `test -f 'RotatedRead.cpp' || echo './'`RotatedRead.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o DAssembler DAssembler-DAssembler.o DAssembler-RotatedRead.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DAssembler' Making all in DistanceEst make[4]: Entering directory '/<>/DistanceEst' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst_ssq-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst_ssq-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o DistanceEst-ssq DistanceEst_ssq-DistanceEst.o DistanceEst_ssq-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o DistanceEst DistanceEst-DistanceEst.o DistanceEst-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/DistanceEst' Making all in KAligner make[4]: Entering directory '/<>/KAligner' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KAligner-KAligner.o `test -f 'KAligner.cpp' || echo './'`KAligner.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KAligner-Aligner.o `test -f 'Aligner.cpp' || echo './'`Aligner.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o KAligner KAligner-KAligner.o KAligner-Aligner.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -lpthread -ldl -lm make[4]: Leaving directory '/<>/KAligner' Making all in Layout make[4]: Entering directory '/<>/Layout' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_layout-layout.o `test -f 'layout.cc' || echo './'`layout.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-layout abyss_layout-layout.o ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Layout' Making all in LogKmerCount make[4]: Entering directory '/<>/LogKmerCount' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o logcounter-logcounter.o `test -f 'logcounter.cc' || echo './'`logcounter.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o logcounter logcounter-logcounter.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/LogKmerCount' Making all in Map make[4]: Entering directory '/<>/Map' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_index-index.o `test -f 'index.cc' || echo './'`index.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_map-map.o `test -f 'map.cc' || echo './'`map.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -D SAM_SEQ_QUAL=1 -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_map_ssq-map.o `test -f 'map.cc' || echo './'`map.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_overlap-overlap.o `test -f 'overlap.cc' || echo './'`overlap.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-index abyss_index-index.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-map abyss_map-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-map-ssq abyss_map_ssq-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-overlap abyss_overlap-overlap.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Map' Making all in MergePaths make[4]: Entering directory '/<>/MergePaths' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o MergePaths-MergePaths.o `test -f 'MergePaths.cpp' || echo './'`MergePaths.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o MergeContigs-MergeContigs.o `test -f 'MergeContigs.cpp' || echo './'`MergeContigs.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I../SimpleGraph -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PathConsensus-PathConsensus.o `test -f 'PathConsensus.cpp' || echo './'`PathConsensus.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o MergeContigs MergeContigs-MergeContigs.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PathConsensus PathConsensus-PathConsensus.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o MergePaths MergePaths-MergePaths.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/MergePaths' Making all in Misc make[4]: Entering directory '/<>/Misc' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/Misc' Making all in Overlap make[4]: Entering directory '/<>/Overlap' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Overlap-Overlap.o `test -f 'Overlap.cpp' || echo './'`Overlap.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o Overlap Overlap-Overlap.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Overlap' Making all in PairedDBG make[4]: Entering directory '/<>/PairedDBG' g++ -DHAVE_CONFIG_H -I. -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KmerPair.o KmerPair.cc g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg-abyss-paired-dbg.o `test -f 'abyss-paired-dbg.cc' || echo './'`abyss-paired-dbg.cc g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg-KmerPair.o `test -f 'KmerPair.cc' || echo './'`KmerPair.cc rm -f libpaireddbg.a ar cru libpaireddbg.a KmerPair.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libpaireddbg.a g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-paired-dbg abyss_paired_dbg-abyss-paired-dbg.o abyss_paired_dbg-KmerPair.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm make[4]: Leaving directory '/<>/PairedDBG' Making all in ParseAligns make[4]: Entering directory '/<>/ParseAligns' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fixmate-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fixmate_ssq-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ParseAligns-ParseAligns.o `test -f 'ParseAligns.cpp' || echo './'`ParseAligns.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o ParseAligns ParseAligns-ParseAligns.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-fixmate abyss_fixmate-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-fixmate-ssq abyss_fixmate_ssq-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/ParseAligns' Making all in PathOverlap make[4]: Entering directory '/<>/PathOverlap' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PathOverlap-PathOverlap.o `test -f 'PathOverlap.cpp' || echo './'`PathOverlap.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PathOverlap PathOverlap-PathOverlap.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/PathOverlap' Making all in PopBubbles make[4]: Entering directory '/<>/PopBubbles' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PopBubbles-PopBubbles.o `test -f 'PopBubbles.cpp' || echo './'`PopBubbles.cpp g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PopBubbles PopBubbles-PopBubbles.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm make[4]: Leaving directory '/<>/PopBubbles' Making all in Scaffold make[4]: Entering directory '/<>/Scaffold' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_scaffold-scaffold.o `test -f 'scaffold.cc' || echo './'`scaffold.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_junction-junction.o `test -f 'junction.cc' || echo './'`junction.cc g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_longseqdist-longseqdist.o `test -f 'longseqdist.cpp' || echo './'`longseqdist.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_drawgraph-drawgraph.o `test -f 'drawgraph.cc' || echo './'`drawgraph.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-longseqdist abyss_longseqdist-longseqdist.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-junction abyss_junction-junction.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-drawgraph abyss_drawgraph-drawgraph.o ../Common/libcommon.a -ldl -lm g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-scaffold abyss_scaffold-scaffold.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Scaffold' Making all in SimpleGraph make[4]: Entering directory '/<>/SimpleGraph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o SimpleGraph-SimpleGraph.o `test -f 'SimpleGraph.cpp' || echo './'`SimpleGraph.cpp g++ -Wall -Wextra -Wno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o SimpleGraph SimpleGraph-SimpleGraph.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -lpthread -ldl -lm make[4]: Leaving directory '/<>/SimpleGraph' Making all in kmerprint make[4]: Entering directory '/<>/kmerprint' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o kmerprint-kmerprint.o `test -f 'kmerprint.cc' || echo './'`kmerprint.cc g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o kmerprint kmerprint-kmerprint.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/kmerprint' Making all in FilterGraph make[4]: Entering directory '/<>/FilterGraph' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_filtergraph-FilterGraph.o `test -f 'FilterGraph.cc' || echo './'`FilterGraph.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-filtergraph abyss_filtergraph-FilterGraph.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/FilterGraph' Making all in GapFiller make[4]: Entering directory '/<>/GapFiller' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../Align -D SAM_SEQ_QUAL=1 -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_gapfill-gapfill.o `test -f 'gapfill.cpp' || echo './'`gapfill.cpp g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-gapfill abyss_gapfill-gapfill.o ../Align/libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/GapFiller' Making all in Sealer make[4]: Entering directory '/<>/Sealer' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_sealer-sealer.o `test -f 'sealer.cc' || echo './'`sealer.cc g++ -Wall -Wextra -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o abyss-sealer abyss_sealer-sealer.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm make[4]: Leaving directory '/<>/Sealer' Making all in AdjList make[4]: Entering directory '/<>/AdjList' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -DPAIRED_DBG -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o AdjList-AdjList.o `test -f 'AdjList.cpp' || echo './'`AdjList.cpp g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o AdjList AdjList-AdjList.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../PairedDBG/libpaireddbg.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm make[4]: Leaving directory '/<>/AdjList' Making all in lib/bloomfilter make[4]: Entering directory '/<>/lib/bloomfilter' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/lib/bloomfilter' Making all in lib/rolling-hash make[4]: Entering directory '/<>/lib/rolling-hash' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/lib/rolling-hash' Making all in lib/gtest-1.7.0 make[4]: Entering directory '/<>/lib/gtest-1.7.0' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/lib/gtest-1.7.0' Making all in Unittest make[4]: Entering directory '/<>/Unittest' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/Unittest' make[4]: Entering directory '/<>' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' markdown_py -f README.html README.md make[1]: Leaving directory '/<>' dh_auto_test -a make -j16 check VERBOSE=1 make[1]: Entering directory '/<>' Making check in bin make[2]: Entering directory '/<>/bin' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/bin' Making check in doc make[2]: Entering directory '/<>/doc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/doc' Making check in Common make[2]: Entering directory '/<>/Common' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Common' Making check in Graph make[2]: Entering directory '/<>/Graph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Graph' Making check in DataLayer make[2]: Entering directory '/<>/DataLayer' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DataLayer' Making check in DataBase make[2]: Entering directory '/<>/DataBase' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DataBase' Making check in FMIndex make[2]: Entering directory '/<>/FMIndex' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/FMIndex' Making check in Assembly make[2]: Entering directory '/<>/Assembly' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Assembly' Making check in dialign make[2]: Entering directory '/<>/dialign' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/dialign' Making check in Align make[2]: Entering directory '/<>/Align' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Align' Making check in ABYSS make[2]: Entering directory '/<>/ABYSS' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/ABYSS' Making check in Bloom make[2]: Entering directory '/<>/Bloom' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Bloom' Making check in BloomDBG make[2]: Entering directory '/<>/BloomDBG' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/BloomDBG' Making check in Konnector make[2]: Entering directory '/<>/Konnector' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Konnector' Making check in Consensus make[2]: Entering directory '/<>/Consensus' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Consensus' Making check in DAssembler make[2]: Entering directory '/<>/DAssembler' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DAssembler' Making check in DistanceEst make[2]: Entering directory '/<>/DistanceEst' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/DistanceEst' Making check in KAligner make[2]: Entering directory '/<>/KAligner' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/KAligner' Making check in Layout make[2]: Entering directory '/<>/Layout' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Layout' Making check in LogKmerCount make[2]: Entering directory '/<>/LogKmerCount' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/LogKmerCount' Making check in Map make[2]: Entering directory '/<>/Map' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Map' Making check in MergePaths make[2]: Entering directory '/<>/MergePaths' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/MergePaths' Making check in Misc make[2]: Entering directory '/<>/Misc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Misc' Making check in Overlap make[2]: Entering directory '/<>/Overlap' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Overlap' Making check in PairedDBG make[2]: Entering directory '/<>/PairedDBG' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PairedDBG' Making check in ParseAligns make[2]: Entering directory '/<>/ParseAligns' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/ParseAligns' Making check in PathOverlap make[2]: Entering directory '/<>/PathOverlap' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PathOverlap' Making check in PopBubbles make[2]: Entering directory '/<>/PopBubbles' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/PopBubbles' Making check in Scaffold make[2]: Entering directory '/<>/Scaffold' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Scaffold' Making check in SimpleGraph make[2]: Entering directory '/<>/SimpleGraph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/SimpleGraph' Making check in kmerprint make[2]: Entering directory '/<>/kmerprint' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/kmerprint' Making check in FilterGraph make[2]: Entering directory '/<>/FilterGraph' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/FilterGraph' Making check in GapFiller make[2]: Entering directory '/<>/GapFiller' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/GapFiller' Making check in Sealer make[2]: Entering directory '/<>/Sealer' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/Sealer' Making check in AdjList make[2]: Entering directory '/<>/AdjList' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/AdjList' Making check in lib/bloomfilter make[2]: Entering directory '/<>/lib/bloomfilter' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/lib/bloomfilter' Making check in lib/rolling-hash make[2]: Entering directory '/<>/lib/rolling-hash' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/<>/lib/rolling-hash' Making check in lib/gtest-1.7.0 make[2]: Entering directory '/<>/lib/gtest-1.7.0' make libgtest.a libgtest_main.a make[3]: Entering directory '/<>/lib/gtest-1.7.0' g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_main_a-gtest_main.o `test -f 'src/gtest_main.cc' || echo './'`src/gtest_main.cc g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_main_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc rm -f libgtest_main.a ar cru libgtest_main.a src/libgtest_main_a-gtest_main.o src/libgtest_main_a-gtest-all.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libgtest_main.a rm -f libgtest.a ar cru libgtest.a src/libgtest_a-gtest-all.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libgtest.a make[3]: Leaving directory '/<>/lib/gtest-1.7.0' make[2]: Leaving directory '/<>/lib/gtest-1.7.0' Making check in Unittest make[2]: Entering directory '/<>/Unittest' make common_stringutil common_histogram common_bitutil common_kmer common_sequence common_KmerIterator common_sam BloomFilter Konnector_DBGBloom Konnector_DBGBloomAlgorithms graph_ConstrainedBFSVisitor graph_BidirectionalBFS graph_AllPathsSearch graph_HashGraph graph_ConstrainedBidiBFSVisitor graph_ExtendPath graph_DotIO graph_UndirectedGraph Konnector_konnector DBG_LoadAlgorithm PairedDBG_LoadAlgorithm PairedDBG_KmerPair PairedDBG_Dinuc PairedDBG_BranchRecord BloomDBG_BloomDBG BloomDBG_RollingHash BloomDBG_RollingHashIterator BloomDBG_HashAgnosticCascadingBloom BloomDBG_RollingBloomDBG BloomDBG_MaskedKmer BloomDBG_SpacedSeed make[3]: Entering directory '/<>/Unittest' g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/StringUtilTest.o Common/StringUtilTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/HistogramTest.o Common/HistogramTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/BitUtilTest.o Common/BitUtilTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/KmerTest.o Common/KmerTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/Sequence.o Common/Sequence.cc g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/KmerIteratorTest.o Common/KmerIteratorTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/SAM.o Common/SAM.cc g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/BloomFilter-BloomFilter.o `test -f 'Konnector/BloomFilter.cc' || echo './'`Konnector/BloomFilter.cc g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_DBGBloom-DBGBloomTest.o `test -f 'Konnector/DBGBloomTest.cpp' || echo './'`Konnector/DBGBloomTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o `test -f 'Konnector/DBGBloomAlgorithmsTest.cpp' || echo './'`Konnector/DBGBloomAlgorithmsTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o `test -f 'Graph/ConstrainedBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBFSVisitorTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o `test -f 'Graph/BidirectionalBFSTest.cpp' || echo './'`Graph/BidirectionalBFSTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_AllPathsSearch-AllPathsSearchTest.o `test -f 'Graph/AllPathsSearchTest.cpp' || echo './'`Graph/AllPathsSearchTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_HashGraph-HashGraphTest.o `test -f 'Graph/HashGraphTest.cpp' || echo './'`Graph/HashGraphTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o `test -f 'Graph/ConstrainedBidiBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBidiBFSVisitorTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ExtendPath-ExtendPathTest.o `test -f 'Graph/ExtendPathTest.cpp' || echo './'`Graph/ExtendPathTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_DotIO-DotIOTest.o `test -f 'Graph/DotIOTest.cpp' || echo './'`Graph/DotIOTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/UndirectedGraphTest.o Graph/UndirectedGraphTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_konnector-konnectorTest.o `test -f 'Konnector/konnectorTest.cpp' || echo './'`Konnector/konnectorTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'DBG/LoadAlgorithmTest.cpp' || echo './'`DBG/LoadAlgorithmTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'PairedDBG/LoadAlgorithmTest.cpp' || echo './'`PairedDBG/LoadAlgorithmTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_KmerPair-KmerPairTest.o `test -f 'PairedDBG/KmerPairTest.cc' || echo './'`PairedDBG/KmerPairTest.cc g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_Dinuc-DinucTest.o `test -f 'PairedDBG/DinucTest.cc' || echo './'`PairedDBG/DinucTest.cc g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o `test -f 'PairedDBG/BranchRecordTest.cpp' || echo './'`PairedDBG/BranchRecordTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_BloomDBG-BloomDBGTest.o `test -f 'BloomDBG/BloomDBGTest.cpp' || echo './'`BloomDBG/BloomDBGTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/RollingHashTest.o BloomDBG/RollingHashTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/RollingHashIteratorTest.o BloomDBG/RollingHashIteratorTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_HashAgnosticCascadingBloom-HashAgnosticCascadingBloomTest.o `test -f 'BloomDBG/HashAgnosticCascadingBloomTest.cpp' || echo './'`BloomDBG/HashAgnosticCascadingBloomTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_RollingBloomDBG-RollingBloomDBGTest.o `test -f 'BloomDBG/RollingBloomDBGTest.cpp' || echo './'`BloomDBG/RollingBloomDBGTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/MaskedKmerTest.o BloomDBG/MaskedKmerTest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<> -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/SpacedSeedTest.o BloomDBG/SpacedSeedTest.cpp g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_stringutil Common/StringUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_histogram Common/HistogramTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_bitutil Common/BitUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_kmer Common/KmerTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_sequence Common/Sequence.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_KmerIterator Common/KmerIteratorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o common_sam Common/SAM.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomFilter Konnector/BloomFilter-BloomFilter.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o Konnector_DBGBloom Konnector/Konnector_DBGBloom-DBGBloomTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o Konnector_DBGBloomAlgorithms Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_BidirectionalBFS Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_HashGraph Graph/graph_HashGraph-HashGraphTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_UndirectedGraph Graph/UndirectedGraphTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o DBG_LoadAlgorithm DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PairedDBG_LoadAlgorithm PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o ../PairedDBG/libpaireddbg.a ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PairedDBG_KmerPair PairedDBG/PairedDBG_KmerPair-KmerPairTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PairedDBG_Dinuc PairedDBG/PairedDBG_Dinuc-DinucTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o PairedDBG_BranchRecord PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingHash BloomDBG/RollingHashTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingHashIterator BloomDBG/RollingHashIteratorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_MaskedKmer BloomDBG/MaskedKmerTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_DotIO Graph/graph_DotIO-DotIOTest.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_HashAgnosticCascadingBloom BloomDBG/BloomDBG_HashAgnosticCascadingBloom-HashAgnosticCascadingBloomTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_AllPathsSearch Graph/graph_AllPathsSearch-AllPathsSearchTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_SpacedSeed BloomDBG/SpacedSeedTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_ExtendPath Graph/graph_ExtendPath-ExtendPathTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_ConstrainedBFSVisitor Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o graph_ConstrainedBidiBFSVisitor Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_BloomDBG BloomDBG/BloomDBG_BloomDBG-BloomDBGTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingBloomDBG BloomDBG/BloomDBG_RollingBloomDBG-RollingBloomDBGTest.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm g++ -Wall -Wextra -pthread -Wno-error -Wno-unknown-pragmas -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -Wl,-z,relro -Wl,-z,now -o Konnector_konnector Konnector/Konnector_konnector-konnectorTest.o ../Align/libalign.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm make[3]: Leaving directory '/<>/Unittest' make check-TESTS make[3]: Entering directory '/<>/Unittest' make[4]: Entering directory '/<>/Unittest' PASS: common_histogram PASS: common_stringutil PASS: common_sequence PASS: common_kmer PASS: common_bitutil PASS: graph_AllPathsSearch PASS: graph_BidirectionalBFS PASS: common_KmerIterator PASS: Konnector_DBGBloomAlgorithms PASS: common_sam PASS: graph_ExtendPath PASS: graph_ConstrainedBidiBFSVisitor PASS: graph_HashGraph PASS: Konnector_DBGBloom PASS: BloomFilter PASS: graph_ConstrainedBFSVisitor PASS: graph_UndirectedGraph PASS: PairedDBG_KmerPair PASS: Konnector_konnector PASS: graph_DotIO PASS: PairedDBG_BranchRecord PASS: BloomDBG_RollingHashIterator FAIL: BloomDBG_BloomDBG FAIL: BloomDBG_RollingBloomDBG PASS: BloomDBG_RollingHash PASS: BloomDBG_HashAgnosticCascadingBloom PASS: BloomDBG_SpacedSeed PASS: PairedDBG_Dinuc PASS: BloomDBG_MaskedKmer PASS: DBG_LoadAlgorithm PASS: PairedDBG_LoadAlgorithm ========================================== ABySS 2.0.2: Unittest/test-suite.log ========================================== # TOTAL: 31 # PASS: 29 # SKIP: 0 # XFAIL: 0 # FAIL: 2 # XPASS: 0 # ERROR: 0 .. contents:: :depth: 2 FAIL: BloomDBG_BloomDBG ======================= Running main() from gtest_main.cc [==========] Running 2 tests from 1 test case. [----------] Global test environment set-up. [----------] 2 tests from BloomDBG [ RUN ] BloomDBG.pathToSeq [ OK ] BloomDBG.pathToSeq (0 ms) [ RUN ] BloomDBG.splitSeq BloomDBG/BloomDBGTest.cpp:80: Failure Value of: out_degree(GACTC, graph1) Actual: 0 Expected: 1U Which is: 1 [ FAILED ] BloomDBG.splitSeq (0 ms) [----------] 2 tests from BloomDBG (0 ms total) [----------] Global test environment tear-down [==========] 2 tests from 1 test case ran. (0 ms total) [ PASSED ] 1 test. [ FAILED ] 1 test, listed below: [ FAILED ] BloomDBG.splitSeq 1 FAILED TEST FAIL BloomDBG_BloomDBG (exit status: 1) FAIL: BloomDBG_RollingBloomDBG ============================== Running main() from gtest_main.cc [==========] Running 5 tests from 2 test cases. [----------] Global test environment set-up. [----------] 4 tests from RollingBloomDBGTest [ RUN ] RollingBloomDBGTest.out_edge_iterator BloomDBG/RollingBloomDBGTest.cpp:72: Failure Value of: out_degree(GACTC, m_graph) Actual: 0 Expected: 2u Which is: 2 [ FAILED ] RollingBloomDBGTest.out_edge_iterator (0 ms) [ RUN ] RollingBloomDBGTest.adjacency_iterator BloomDBG/RollingBloomDBGTest.cpp:100: Failure Value of: out_degree(GACTC, m_graph) Actual: 0 Expected: 2u Which is: 2 [ FAILED ] RollingBloomDBGTest.adjacency_iterator (0 ms) [ RUN ] RollingBloomDBGTest.in_edges [ OK ] RollingBloomDBGTest.in_edges (0 ms) [ RUN ] RollingBloomDBGTest.pathTraversal BloomDBG/RollingBloomDBGTest.cpp:182: Failure Value of: out_degree(v, graph) Actual: 0 Expected: 1u Which is: 1 [ FAILED ] RollingBloomDBGTest.pathTraversal (0 ms) [----------] 4 tests from RollingBloomDBGTest (0 ms total) [----------] 1 test from RollingBloomDBGSpacedSeedTest [ RUN ] RollingBloomDBGSpacedSeedTest.out_edge_iterator [ OK ] RollingBloomDBGSpacedSeedTest.out_edge_iterator (0 ms) [----------] 1 test from RollingBloomDBGSpacedSeedTest (0 ms total) [----------] Global test environment tear-down [==========] 5 tests from 2 test cases ran. (0 ms total) [ PASSED ] 2 tests. [ FAILED ] 3 tests, listed below: [ FAILED ] RollingBloomDBGTest.out_edge_iterator [ FAILED ] RollingBloomDBGTest.adjacency_iterator [ FAILED ] RollingBloomDBGTest.pathTraversal 3 FAILED TESTS FAIL BloomDBG_RollingBloomDBG (exit status: 1) ============================================================================ Testsuite summary for ABySS 2.0.2 ============================================================================ # TOTAL: 31 # PASS: 29 # SKIP: 0 # XFAIL: 0 # FAIL: 2 # XPASS: 0 # ERROR: 0 ============================================================================ See Unittest/test-suite.log Please report to abyss-users@bcgsc.ca ============================================================================ Makefile:1598: recipe for target 'test-suite.log' failed make[4]: *** [test-suite.log] Error 1 make[4]: Leaving directory '/<>/Unittest' Makefile:1704: recipe for target 'check-TESTS' failed make[3]: *** [check-TESTS] Error 2 make[3]: Leaving directory '/<>/Unittest' Makefile:1987: recipe for target 'check-am' failed make[2]: *** [check-am] Error 2 make[2]: Leaving directory '/<>/Unittest' Makefile:487: recipe for target 'check-recursive' failed make[1]: *** [check-recursive] Error 1 make[1]: Leaving directory '/<>' dh_auto_test: make -j16 check VERBOSE=1 returned exit code 2 debian/rules:10: recipe for target 'build-arch' failed make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 -------------------------------------------------------------------------------- Build finished at 2017-07-06T15:57:08Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 285396 Build-Time: 154 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 11 Job: abyss_2.0.2-3 Machine Architecture: amd64 Package: abyss Package-Time: 188 Source-Version: 2.0.2-3 Space: 285396 Status: attempted Version: 2.0.2-3 -------------------------------------------------------------------------------- Finished at 2017-07-06T15:57:08Z Build needed 00:03:08, 285396k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 188.656678926s DC-Time-Estimation: 188.656678926 versus expected 1 (r/m: 187.656678926 ; m: 1.0)