https://launchpad.net/ubuntu/+source/last-align/961-1/+build/15790326 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-023 4.4.0-140-generic #166-Ubuntu SMP Wed Nov 14 20:09:47 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 17 Dec 23:11:41 ntpdate[1808]: adjust time server 10.211.37.1 offset 0.000784 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15790326 /home/buildd/filecache-default/020b0022f770b890c357907d03d82568c584d50e Creating target for build PACKAGEBUILD-15790326 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15790326 Starting target for build PACKAGEBUILD-15790326 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15790326 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15790326 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15790326 Updating target for build PACKAGEBUILD-15790326 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 Packages [1006 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe amd64 Packages [8975 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5154 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 Packages [76.1 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [34.1 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 Packages [755 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [321 kB] Fetched 17.3 MB in 7s (2557 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu cpp-8 dpkg dpkg-dev e2fslibs e2fsprogs g++-8 gcc-8 gcc-8-base libasan5 libassuan0 libatomic1 libbinutils libcc1-0 libcom-err2 libcomerr2 libdpkg-perl libext2fs2 libgcc-8-dev libgcc1 libgomp1 libgpg-error0 libitm1 liblsan0 libmpx2 libquadmath0 libsqlite3-0 libss2 libstdc++-8-dev libstdc++6 libtsan0 libubsan1 linux-libc-dev 35 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 35.6 MB of archives. After this operation, 87.0 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg amd64 1.19.2ubuntu2 [1101 kB] Get:2 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libext2fs2 amd64 1.44.5-1 [159 kB] Get:3 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 e2fsprogs amd64 1.44.5-1 [514 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libubsan1 amd64 8.2.0-12ubuntu2 [121 kB] Get:5 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libtsan0 amd64 8.2.0-12ubuntu2 [288 kB] Get:6 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gcc-8-base amd64 8.2.0-12ubuntu2 [18.7 kB] Get:7 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libstdc++6 amd64 8.2.0-12ubuntu2 [398 kB] Get:8 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgomp1 amd64 8.2.0-12ubuntu2 [76.5 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libitm1 amd64 8.2.0-12ubuntu2 [28.1 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libatomic1 amd64 8.2.0-12ubuntu2 [9088 B] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libasan5 amd64 8.2.0-12ubuntu2 [365 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 liblsan0 amd64 8.2.0-12ubuntu2 [132 kB] Get:13 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libmpx2 amd64 8.2.0-12ubuntu2 [11.7 kB] Get:14 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libquadmath0 amd64 8.2.0-12ubuntu2 [134 kB] Get:15 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 cpp-8 amd64 8.2.0-12ubuntu2 [7226 kB] Get:16 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcc1-0 amd64 8.2.0-12ubuntu2 [39.4 kB] Get:17 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 g++-8 amd64 8.2.0-12ubuntu2 [8112 kB] Get:18 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gcc-8 amd64 8.2.0-12ubuntu2 [7999 kB] Get:19 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgcc-8-dev amd64 8.2.0-12ubuntu2 [2306 kB] Get:20 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libstdc++-8-dev amd64 8.2.0-12ubuntu2 [1539 kB] Get:21 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgcc1 amd64 1:8.2.0-12ubuntu2 [40.7 kB] Get:22 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libbinutils amd64 2.31.1-11ubuntu1 [484 kB] Get:23 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-common amd64 2.31.1-11ubuntu1 [194 kB] Get:24 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils amd64 2.31.1-11ubuntu1 [3396 B] Get:25 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-11ubuntu1 [1829 kB] Get:26 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgpg-error0 amd64 1.33-3 [57.4 kB] Get:27 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcom-err2 amd64 1.44.5-1 [9372 B] Get:28 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libss2 amd64 1.44.5-1 [11.1 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main amd64 libsqlite3-0 amd64 3.26.0-3 [530 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg-dev all 1.19.2ubuntu2 [549 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main amd64 libdpkg-perl all 1.19.2ubuntu2 [227 kB] Get:32 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 e2fslibs amd64 1.44.5-1 [2704 B] Get:33 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libassuan0 amd64 2.5.2-1 [35.1 kB] Get:34 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcomerr2 amd64 1.44.5-1 [2700 B] Get:35 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 linux-libc-dev amd64 4.19.0-9.10 [1041 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 35.6 MB in 2s (18.1 MB/s) (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.2ubuntu2_amd64.deb ... Unpacking dpkg (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Setting up dpkg (1.19.2ubuntu2) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.5-1_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Setting up libext2fs2:amd64 (1.44.5-1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1_amd64.deb ... Unpacking e2fsprogs (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../libubsan1_8.2.0-12ubuntu2_amd64.deb ... Unpacking libubsan1:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../libtsan0_8.2.0-12ubuntu2_amd64.deb ... Unpacking libtsan0:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../gcc-8-base_8.2.0-12ubuntu2_amd64.deb ... Unpacking gcc-8-base:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Setting up gcc-8-base:amd64 (8.2.0-12ubuntu2) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../libstdc++6_8.2.0-12ubuntu2_amd64.deb ... Unpacking libstdc++6:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Setting up libstdc++6:amd64 (8.2.0-12ubuntu2) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../00-libgomp1_8.2.0-12ubuntu2_amd64.deb ... Unpacking libgomp1:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../01-libitm1_8.2.0-12ubuntu2_amd64.deb ... Unpacking libitm1:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../02-libatomic1_8.2.0-12ubuntu2_amd64.deb ... Unpacking libatomic1:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../03-libasan5_8.2.0-12ubuntu2_amd64.deb ... Unpacking libasan5:amd64 (8.2.0-12ubuntu2) over (8.2.0-12ubuntu1) ... Preparing to unpack .../04-liblsan0_8.2.0-12ubuntu2_amd64.deb ... 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Setting up binutils-common:amd64 (2.31.1-11ubuntu1) ... Setting up libmpx2:amd64 (8.2.0-12ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:amd64 (3.26.0-3) ... Setting up libcomerr2:amd64 (1.44.5-1) ... Setting up libasan5:amd64 (8.2.0-12ubuntu2) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up libitm1:amd64 (8.2.0-12ubuntu2) ... Setting up libubsan1:amd64 (8.2.0-12ubuntu2) ... Setting up libbinutils:amd64 (2.31.1-11ubuntu1) ... Setting up libgcc-8-dev:amd64 (8.2.0-12ubuntu2) ... Setting up binutils-x86-64-linux-gnu (2.31.1-11ubuntu1) ... Setting up libstdc++-8-dev:amd64 (8.2.0-12ubuntu2) ... Setting up binutils (2.31.1-11ubuntu1) ... Setting up gcc-8 (8.2.0-12ubuntu2) ... Setting up g++-8 (8.2.0-12ubuntu2) ... Setting up dpkg-dev (1.19.2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15790326 amd64 disco-proposed -c chroot:build-PACKAGEBUILD-15790326 --arch=amd64 --dist=disco-proposed --nolog -A last-align_961-1.dsc Initiating build PACKAGEBUILD-15790326 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-140-generic #166-Ubuntu SMP Wed Nov 14 20:09:47 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-023.buildd +==============================================================================+ | last-align 961-1 (amd64) 17 Dec 2018 23:12 | +==============================================================================+ Package: last-align Version: 961-1 Source Version: 961-1 Distribution: disco-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/last-align-heSzIk/last-align-961' with '<>' I: NOTICE: Log filtering will replace 'build/last-align-heSzIk' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15790326/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- last-align_961-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-KtHQTY/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-KtHQTY/apt_archive ./ InRelease Get:2 copy:/<>/resolver-KtHQTY/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-KtHQTY/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-KtHQTY/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-KtHQTY/apt_archive ./ Packages [523 B] Fetched 2856 B in 0s (51.2 kB/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 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-KtHQTY/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12667 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) ... Merged Build-Depends: debhelper (>= 11~), help2man, python-pil, zlib1g-dev Filtered Build-Depends: debhelper (>= 11~), help2man, python-pil, zlib1g-dev dpkg-deb: building package 'sbuild-build-depends-last-align-dummy' in '/<>/resolver-W5ziG6/apt_archive/sbuild-build-depends-last-align-dummy.deb'. Ign:1 copy:/<>/resolver-W5ziG6/apt_archive ./ InRelease Get:2 copy:/<>/resolver-W5ziG6/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-W5ziG6/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-W5ziG6/apt_archive ./ Sources [237 B] Get:5 copy:/<>/resolver-W5ziG6/apt_archive ./ Packages [555 B] Fetched 2911 B in 0s (47.3 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install last-align 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 dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0 libicu63 libjbig0 libjpeg-turbo8 libjpeg8 liblcms2-2 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libtiff5 libtool libwebp6 libwebpdemux2 libwebpmux3 libxml2 m4 man-db mime-support po-debconf python python-minimal python-pil python2 python2-minimal python2.7 python2.7-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff liblcms2-utils libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python-pil-doc python-pil-dbg python2-doc python2.7-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl python-olefile The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0 libicu63 libjbig0 libjpeg-turbo8 libjpeg8 liblcms2-2 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libtiff5 libtool libwebp6 libwebpdemux2 libwebpmux3 libxml2 m4 man-db mime-support po-debconf python python-minimal python-pil python2 python2-minimal python2.7 python2.7-minimal sbuild-build-depends-last-align-dummy zlib1g-dev 0 upgraded, 56 newly installed, 0 to remove and 0 not upgraded. Need to get 22.6 MB of archives. After this operation, 86.5 MB of additional disk space will be used. Get:1 copy:/<>/resolver-W5ziG6/apt_archive ./ sbuild-build-depends-last-align-dummy 0.invalid.0 [884 B] Get:2 http://ftpmaster.internal/ubuntu disco/main amd64 liblocale-gettext-perl amd64 1.07-3build3 [16.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco/main amd64 libbsd0 amd64 0.9.1-1 [44.6 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 groff-base amd64 1.22.3-10 [1153 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main amd64 libpipeline1 amd64 1.5.0-2 [25.7 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main amd64 man-db amd64 2.8.4-3 [1028 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2.7-minimal amd64 2.7.15-5 [335 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 python2.7-minimal amd64 2.7.15-5 [1308 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main amd64 python2-minimal amd64 2.7.15-3 [28.1 kB] Get:11 http://ftpmaster.internal/ubuntu disco/main amd64 python-minimal amd64 2.7.15-3 [5996 B] Get:12 http://ftpmaster.internal/ubuntu disco/main amd64 mime-support all 3.60ubuntu1 [30.1 kB] Get:13 http://ftpmaster.internal/ubuntu disco/main amd64 libexpat1 amd64 2.2.6-1 [87.2 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2.7-stdlib amd64 2.7.15-5 [1909 kB] Get:15 http://ftpmaster.internal/ubuntu disco/main amd64 python2.7 amd64 2.7.15-5 [239 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2-stdlib amd64 2.7.15-3 [7728 B] Get:17 http://ftpmaster.internal/ubuntu disco/main amd64 libpython-stdlib amd64 2.7.15-3 [5824 B] Get:18 http://ftpmaster.internal/ubuntu disco/main amd64 python2 amd64 2.7.15-3 [26.5 kB] Get:19 http://ftpmaster.internal/ubuntu disco/main amd64 python amd64 2.7.15-3 [7828 B] Get:20 http://ftpmaster.internal/ubuntu disco/main amd64 libmagic-mgc amd64 1:5.34-2 [197 kB] Get:21 http://ftpmaster.internal/ubuntu disco/main amd64 libmagic1 amd64 1:5.34-2 [72.3 kB] Get:22 http://ftpmaster.internal/ubuntu disco/main amd64 file amd64 1:5.34-2 [22.8 kB] Get:23 http://ftpmaster.internal/ubuntu disco/main amd64 libelf1 amd64 0.175-1 [44.2 kB] Get:24 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-0 amd64 2.58.1-2 [1176 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main amd64 libicu63 amd64 63.1-5 [8284 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main amd64 libxml2 amd64 2.9.4+dfsg1-7ubuntu3 [625 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main amd64 gettext-base amd64 0.19.8.1-9 [50.1 kB] Get:28 http://ftpmaster.internal/ubuntu disco/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main amd64 m4 amd64 1.4.18-2 [199 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main amd64 autoconf all 2.69-11 [322 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:32 http://ftpmaster.internal/ubuntu disco/main amd64 automake all 1:1.16.1-4 [522 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main amd64 autopoint all 0.19.8.1-9 [412 kB] Get:34 http://ftpmaster.internal/ubuntu disco/main amd64 libtool all 2.4.6-6 [195 kB] Get:35 http://ftpmaster.internal/ubuntu disco/main amd64 dh-autoreconf all 19 [16.1 kB] Get:36 http://ftpmaster.internal/ubuntu disco/main amd64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main amd64 libfile-stripnondeterminism-perl all 1.0.0-1 [13.9 kB] Get:38 http://ftpmaster.internal/ubuntu disco/main amd64 dh-strip-nondeterminism all 1.0.0-1 [5064 B] Get:39 http://ftpmaster.internal/ubuntu disco/main amd64 dwz amd64 0.12-3 [78.1 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main amd64 libcroco3 amd64 0.6.12-2 [81.3 kB] Get:41 http://ftpmaster.internal/ubuntu disco/main amd64 gettext amd64 0.19.8.1-9 [896 kB] Get:42 http://ftpmaster.internal/ubuntu disco/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:43 http://ftpmaster.internal/ubuntu disco/main amd64 po-debconf all 1.0.21 [233 kB] Get:44 http://ftpmaster.internal/ubuntu disco/main amd64 debhelper all 11.5.3ubuntu1 [888 kB] Get:45 http://ftpmaster.internal/ubuntu disco/universe amd64 help2man amd64 1.47.8 [169 kB] Get:46 http://ftpmaster.internal/ubuntu disco/main amd64 libfreetype6 amd64 2.8.1-2ubuntu2 [335 kB] Get:47 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-turbo8 amd64 2.0.0-0ubuntu2 [117 kB] Get:48 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:49 http://ftpmaster.internal/ubuntu disco/main amd64 liblcms2-2 amd64 2.9-3 [139 kB] Get:50 http://ftpmaster.internal/ubuntu disco/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:51 http://ftpmaster.internal/ubuntu disco/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:52 http://ftpmaster.internal/ubuntu disco/main amd64 libtiff5 amd64 4.0.10-3 [157 kB] Get:53 http://ftpmaster.internal/ubuntu disco/main amd64 libwebpdemux2 amd64 0.6.1-2 [9472 B] Get:54 http://ftpmaster.internal/ubuntu disco/main amd64 libwebpmux3 amd64 0.6.1-2 [19.6 kB] Get:55 http://ftpmaster.internal/ubuntu disco/main amd64 python-pil amd64 5.3.0-1 [335 kB] Get:56 http://ftpmaster.internal/ubuntu disco/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-0ubuntu2 [176 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 22.6 MB in 1s (29.9 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 12667 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-3build3_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3build3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../01-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_11.1.2ubuntu2_amd64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.3-10_amd64.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.0-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.4-3_amd64.deb ... Unpacking man-db (2.8.4-3) ... 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Setting up libglib2.0-0:amd64 (2.58.1-2) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-9) ... Setting up libjpeg-turbo8:amd64 (2.0.0-0ubuntu2) ... Setting up libpipeline1:amd64 (1.5.0-2) ... Setting up m4 (1.4.18-2) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7ubuntu3) ... Setting up libfreetype6:amd64 (2.8.1-2ubuntu2) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libmagic1:amd64 (1:5.34-2) ... Setting up libcroco3:amd64 (0.6.12-2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Setting up liblocale-gettext-perl (1.07-3build3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... 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 libpython2.7-stdlib:amd64 (2.7.15-5) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:amd64 (0.6.1-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (1.0.0-1) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.15-5) ... Setting up libtiff5:amd64 (4.0.10-3) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.34-2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libwebpmux3:amd64 (0.6.1-2) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up help2man (1.47.8) ... Setting up libwebpdemux2:amd64 (0.6.1-2) ... Setting up man-db (2.8.4-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:amd64 (2.7.15-3) ... Setting up libtool (2.4.6-6) ... Setting up po-debconf (1.0.21) ... Setting up python2 (2.7.15-3) ... Setting up libpython-stdlib:amd64 (2.7.15-3) ... Setting up python (2.7.15-3) ... Setting up python-pil:amd64 (5.3.0-1) ... Setting up dh-strip-nondeterminism (1.0.0-1) ... Setting up debhelper (11.5.3ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up sbuild-build-depends-last-align-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-140-generic amd64 (x86_64) Toolchain package versions: binutils_2.31.1-11ubuntu1 dpkg-dev_1.19.2ubuntu2 g++-8_8.2.0-12ubuntu2 gcc-8_8.2.0-12ubuntu2 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-12ubuntu2 libstdc++6_8.2.0-12ubuntu2 linux-libc-dev_4.19.0-9.10 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.8.0~alpha2ubuntu1 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 binutils_2.31.1-11ubuntu1 binutils-common_2.31.1-11ubuntu1 binutils-x86-64-linux-gnu_2.31.1-11ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu2 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 coreutils_8.28-1ubuntu2 cpp_4:8.2.0-2ubuntu2 cpp-8_8.2.0-12ubuntu2 dash_0.5.10.2-2 debconf_1.5.69 debhelper_11.5.3ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_1.0.0-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 dpkg_1.19.2ubuntu2 dpkg-dev_1.19.2ubuntu2 dwz_0.12-3 e2fslibs_1.44.5-1 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.32-0.1ubuntu2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-12ubuntu2 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-12ubuntu2 gcc-8-base_8.2.0-12ubuntu2 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpg_2.2.8-3ubuntu1 gpg-agent_2.2.8-3ubuntu1 gpgconf_2.2.8-3ubuntu1 gpgv_2.2.8-3ubuntu1 grep_3.1-3 groff-base_1.22.3-10 gzip_1.6-5ubuntu2 help2man_1.47.8 hostname_3.21 init_1.56 init-system-helpers_1.56 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.8.0~alpha2ubuntu1 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-12ubuntu2 libassuan0_2.5.2-1 libatomic1_8.2.0-12ubuntu2 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libbinutils_2.31.1-11ubuntu1 libblkid1_2.32-0.1ubuntu2 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-0ubuntu1 libc-dev-bin_2.28-0ubuntu1 libc6_2.28-0ubuntu1 libc6-dev_2.28-0ubuntu1 libcap-ng0_0.7.9-1build1 libcap2_1:2.25-1.2 libcc1-0_8.2.0-12ubuntu2 libcom-err2_1.44.5-1 libcomerr2_1.44.5-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.4-2ubuntu2 libdb5.3_5.3.28+dfsg1-0.2 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.2ubuntu2 libelf1_0.175-1 libexpat1_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.32-0.1ubuntu2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.0.0-1 libfreetype6_2.8.1-2ubuntu2 libgcc-8-dev_8.2.0-12ubuntu2 libgcc1_1:8.2.0-12ubuntu2 libgcrypt20_1.8.4-3ubuntu1 libgdbm-compat4_1.18.1-2 libgdbm6_1.18.1-2 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.4-2ubuntu2 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+------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Dec 17 10:20:17 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./last-align_961-1.dsc dpkg-source: info: extracting last-align in last-align-961 dpkg-source: info: unpacking last-align_961.orig.tar.xz dpkg-source: info: unpacking last-align_961-1.debian.tar.xz Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-15790326 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15790326 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15790326 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package last-align dpkg-buildpackage: info: source version 961-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean dh_auto_clean make V=1 -j4 clean make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/src' rm -f lastdb lastal last-split last-merge-batches last-pair-probs lastdb8 lastal8 last-split8 *.o* */*.o* make[2]: Leaving directory '/<>/src' make[1]: Leaving directory '/<>' dh_clean debian/rules build make: 'build' is up to date. fakeroot debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/<>' make all CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11" CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread" make[2]: Entering directory '/<>' make[3]: Entering directory '/<>/src' g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o Alphabet.o Alphabet.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o CyclicSubsetSeed.o CyclicSubsetSeed.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o LambdaCalculator.o LambdaCalculator.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o ScoreMatrix.o ScoreMatrix.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetMinimizerFinder.o SubsetMinimizerFinder.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o TantanMasker.o TantanMasker.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o fileMap.o fileMap.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o tantan.o tantan.cc if test -e ../.hg ; \ then echo \"`hg id -n`\" | cmp -s version.hh - || echo \"`hg id -n`\" > version.hh ; \ elif test -e ../.hg_archival.txt ; \ then echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" | cmp -s version.hh - || echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" > version.hh ; \ else test -e version.hh || echo \"UNKNOWN\" > version.hh ; \ fi g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o LastdbArguments.o LastdbArguments.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o MultiSequence.o MultiSequence.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o MultiSequenceQual.o MultiSequenceQual.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArray.o SubsetSuffixArray.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArraySort.o SubsetSuffixArraySort.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o lastdb.o lastdb.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o lastdb Alphabet.o CyclicSubsetSeed.o LambdaCalculator.o ScoreMatrix.o SubsetMinimizerFinder.o TantanMasker.o fileMap.o tantan.o LastdbArguments.o MultiSequence.o MultiSequenceQual.o SubsetSuffixArray.o SubsetSuffixArraySort.o lastdb.o -lz g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o LastalArguments.o LastalArguments.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GappedXdropAligner.o GappedXdropAligner.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GappedXdropAlignerPssm.o GappedXdropAlignerPssm.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GappedXdropAligner2qual.o GappedXdropAligner2qual.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GappedXdropAligner3frame.o GappedXdropAligner3frame.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GeneralizedAffineGapCosts.o GeneralizedAffineGapCosts.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GeneticCode.o GeneticCode.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o GreedyXdropAligner.o GreedyXdropAligner.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o LastEvaluer.o LastEvaluer.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o OneQualityScoreMatrix.o OneQualityScoreMatrix.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o QualityPssmMaker.o QualityPssmMaker.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o TwoQualityScoreMatrix.o TwoQualityScoreMatrix.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o gaplessXdrop.o gaplessXdrop.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o gaplessPssmXdrop.o gaplessPssmXdrop.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o gaplessTwoQualityXdrop.o gaplessTwoQualityXdrop.cc g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_alignment_evaluer.o alp/sls_alignment_evaluer.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/sls_alignment_evaluer.cpp:44: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/sls_alignment_evaluer.cpp:44: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_pvalues.o alp/sls_pvalues.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_alp_sim.o alp/sls_alp_sim.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_alp_regression.o alp/sls_alp_regression.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_alp_data.o alp/sls_alp_data.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_alp.o alp/sls_alp.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_basic.o alp/sls_basic.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_localmaxstatmatrix.o alp/njn_localmaxstatmatrix.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstatmatrix.cpp:37: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstatmatrix.cpp:37: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_localmaxstat.o alp/njn_localmaxstat.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstat.cpp:42: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstat.cpp:42: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_localmaxstatutil.o alp/njn_localmaxstatutil.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstatutil.cpp:37: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/njn_localmaxstatutil.cpp:37: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_dynprogprob.o alp/njn_dynprogprob.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_dynprogprobproto.o alp/njn_dynprogprobproto.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_dynprogproblim.o alp/njn_dynprogproblim.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_ioutil.o alp/njn_ioutil.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/njn_random.o alp/njn_random.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_falp_alignment_evaluer.o alp/sls_falp_alignment_evaluer.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/sls_falp_alignment_evaluer.cpp:43: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/sls_falp_alignment_evaluer.cpp:43: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_fsa1_pvalues.o alp/sls_fsa1_pvalues.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_fsa1_utils.o alp/sls_fsa1_utils.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_fsa1.o alp/sls_fsa1.cpp In file included from alp/njn_matrix.hpp:43, from alp/njn_localmaxstatutil.hpp:39, from alp/sls_fsa1.hpp:45, from alp/sls_fsa1.cpp:36: alp/njn_vector.hpp: In member function ‘virtual void Njn::Vector::free2()’: alp/njn_vector.hpp:333:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~ alp/njn_vector.hpp:333:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (getM () > 0) delete [] d_vector_p; d_vector_p = 0; ^~~~~~~~~~ In file included from alp/njn_localmaxstatutil.hpp:39, from alp/sls_fsa1.hpp:45, from alp/sls_fsa1.cpp:36: alp/njn_matrix.hpp: In member function ‘virtual void Njn::Matrix::free2()’: alp/njn_matrix.hpp:600:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~ alp/njn_matrix.hpp:600:54: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (this->getM () > 0) delete [] d_matrix_p; d_matrix_p = 0; ^~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -c -o alp/sls_fsa1_parameters.o alp/sls_fsa1_parameters.cpp g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o Alignment.o Alignment.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o AlignmentPot.o AlignmentPot.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o AlignmentWrite.o AlignmentWrite.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o Centroid.o Centroid.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o DiagonalTable.o DiagonalTable.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SegmentPair.o SegmentPair.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SegmentPairPot.o SegmentPairPot.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArraySearch.o SubsetSuffixArraySearch.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o lastal.o lastal.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o lastal Alphabet.o CyclicSubsetSeed.o LambdaCalculator.o ScoreMatrix.o SubsetMinimizerFinder.o TantanMasker.o fileMap.o tantan.o LastalArguments.o GappedXdropAligner.o GappedXdropAlignerPssm.o GappedXdropAligner2qual.o GappedXdropAligner3frame.o GeneralizedAffineGapCosts.o GeneticCode.o GreedyXdropAligner.o LastEvaluer.o OneQualityScoreMatrix.o QualityPssmMaker.o TwoQualityScoreMatrix.o gaplessXdrop.o gaplessPssmXdrop.o gaplessTwoQualityXdrop.o alp/sls_alignment_evaluer.o alp/sls_pvalues.o alp/sls_alp_sim.o alp/sls_alp_regression.o alp/sls_alp_data.o alp/sls_alp.o alp/sls_basic.o alp/njn_localmaxstatmatrix.o alp/njn_localmaxstat.o alp/njn_localmaxstatutil.o alp/njn_dynprogprob.o alp/njn_dynprogprobproto.o alp/njn_dynprogproblim.o alp/njn_ioutil.o alp/njn_random.o alp/sls_falp_alignment_evaluer.o alp/sls_fsa1_pvalues.o alp/sls_fsa1_utils.o alp/sls_fsa1.o alp/sls_fsa1_parameters.o Alignment.o AlignmentPot.o AlignmentWrite.o Centroid.o DiagonalTable.o MultiSequence.o MultiSequenceQual.o SegmentPair.o SegmentPairPot.o SubsetSuffixArray.o SubsetSuffixArraySearch.o lastal.o -lz g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/cbrc_linalg.o split/cbrc_linalg.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/cbrc_unsplit_alignment.o split/cbrc_unsplit_alignment.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/last-split-main.o split/last-split-main.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/cbrc_split_aligner.o split/cbrc_split_aligner.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/last-split.o split/last-split.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o last-split Alphabet.o fileMap.o split/cbrc_linalg.o split/cbrc_unsplit_alignment.o split/last-split-main.o MultiSequence.o split/cbrc_split_aligner.o split/last-split.o cc -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o last-merge-batches.o last-merge-batches.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o last-merge-batches last-merge-batches.o g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o last-pair-probs.o last-pair-probs.cc g++ -DLAST_INT_TYPE=unsigned -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o last-pair-probs-main.o last-pair-probs-main.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o last-pair-probs last-pair-probs.o last-pair-probs-main.o -lz g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o MultiSequence.o8 MultiSequence.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o MultiSequenceQual.o8 MultiSequenceQual.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArray.o8 SubsetSuffixArray.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArraySort.o8 SubsetSuffixArraySort.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o lastdb.o8 lastdb.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o lastdb8 Alphabet.o CyclicSubsetSeed.o LambdaCalculator.o ScoreMatrix.o SubsetMinimizerFinder.o TantanMasker.o fileMap.o tantan.o LastdbArguments.o MultiSequence.o8 MultiSequenceQual.o8 SubsetSuffixArray.o8 SubsetSuffixArraySort.o8 lastdb.o8 -lz g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o Alignment.o8 Alignment.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o AlignmentPot.o8 AlignmentPot.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o AlignmentWrite.o8 AlignmentWrite.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o Centroid.o8 Centroid.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o DiagonalTable.o8 DiagonalTable.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SegmentPair.o8 SegmentPair.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SegmentPairPot.o8 SegmentPairPot.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o SubsetSuffixArraySearch.o8 SubsetSuffixArraySearch.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o lastal.o8 lastal.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o lastal8 Alphabet.o CyclicSubsetSeed.o LambdaCalculator.o ScoreMatrix.o SubsetMinimizerFinder.o TantanMasker.o fileMap.o tantan.o LastalArguments.o GappedXdropAligner.o GappedXdropAlignerPssm.o GappedXdropAligner2qual.o GappedXdropAligner3frame.o GeneralizedAffineGapCosts.o GeneticCode.o GreedyXdropAligner.o LastEvaluer.o OneQualityScoreMatrix.o QualityPssmMaker.o TwoQualityScoreMatrix.o gaplessXdrop.o gaplessPssmXdrop.o gaplessTwoQualityXdrop.o alp/sls_alignment_evaluer.o alp/sls_pvalues.o alp/sls_alp_sim.o alp/sls_alp_regression.o alp/sls_alp_data.o alp/sls_alp.o alp/sls_basic.o alp/njn_localmaxstatmatrix.o alp/njn_localmaxstat.o alp/njn_localmaxstatutil.o alp/njn_dynprogprob.o alp/njn_dynprogprobproto.o alp/njn_dynprogproblim.o alp/njn_ioutil.o alp/njn_random.o alp/sls_falp_alignment_evaluer.o alp/sls_fsa1_pvalues.o alp/sls_fsa1_utils.o alp/sls_fsa1.o alp/sls_fsa1_parameters.o Alignment.o8 AlignmentPot.o8 AlignmentWrite.o8 Centroid.o8 DiagonalTable.o8 MultiSequence.o8 MultiSequenceQual.o8 SegmentPair.o8 SegmentPairPot.o8 SubsetSuffixArray.o8 SubsetSuffixArraySearch.o8 lastal.o8 -lz g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/cbrc_split_aligner.o8 split/cbrc_split_aligner.cc g++ -DLAST_INT_TYPE=size_t -Wdate-time -D_FORTIFY_SOURCE=2 -DHAS_CXX_THREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -I. -c -o split/last-split.o8 split/last-split.cc g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -std=c++11 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pthread -o last-split8 Alphabet.o fileMap.o split/cbrc_linalg.o split/cbrc_unsplit_alignment.o split/last-split-main.o MultiSequence.o8 split/cbrc_split_aligner.o8 split/last-split.o8 make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test create-stamp debian/debhelper-build-stamp dh_testroot dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/<>' make install prefix=/<>/debian/last-align/usr make[2]: Entering directory '/<>' make[3]: Entering directory '/<>/src' if test -e ../.hg ; \ then echo \"`hg id -n`\" | cmp -s version.hh - || echo \"`hg id -n`\" > version.hh ; \ elif test -e ../.hg_archival.txt ; \ then echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" | cmp -s version.hh - || echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" > version.hh ; \ else test -e version.hh || echo \"UNKNOWN\" > version.hh ; \ fi make[3]: Leaving directory '/<>/src' mkdir -p /<>/debian/last-align/usr/bin cp src/lastdb src/lastal src/last-split src/last-merge-batches src/last-pair-probs src/lastdb8 src/lastal8 src/last-split8 scripts/* /<>/debian/last-align/usr/bin make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_installdocs debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs ChangeLog.txt make[1]: Leaving directory '/<>' dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/<>' dh_installman help2man --no-info --version-string="961" \ --name='make a dotplot, a.k.a. Oxford Grid, of alignments in LAST tabular format' \ /<>/scripts/last-dotplot > /<>/debian/last-align/usr/share/man/man1//last-dotplot.1 help2man --no-info --version-string="961" \ --name="genome-scale comparison of biological sequences" \ --help-option="-h" \ /<>/src/lastal > /<>/debian/last-align/usr/share/man/man1//lastal.1 help2man --no-info --version-string="961" \ --name="genome-scale comparison of biological sequences" \ --help-option="-h" \ /<>/src/lastal8 > /<>/debian/last-align/usr/share/man/man1//lastal8.1 #help2man --no-info --version-string="961" \ # --name="genome-scale comparison of biological sequences" \ # --help-option="-h" \ # /<>/src/lastdb > /<>/debian/last-align/usr/share/man/man1//lastdb.1 help2man --no-info --version-string="961" \ --name="Sort MAF-format alignments by sequence name" \ /<>/scripts/maf-sort > /<>/debian/last-align/usr/share/man/man1//maf-sort.1 help2man --no-info --version-string="961" \ --name="changes the order of the sequences in MAF-format alignments" \ /<>/scripts/maf-swap > /<>/debian/last-align/usr/share/man/man1//maf-swap.1 #help2man --no-info --version-string="961" \ # --name="Add extra column with mapping probabilities" \ # /<>/scripts/last-map-probs > /<>/debian/last-align/usr/share/man/man1//last-map-probs.1 # This script has not enough to put in a manual page. #help2man --no-info --version-string="961" \ # --name="Read files of lastal output, merge corresponding batches, and write them." \ # /<>/scripts/last-merge-batches > /<>/debian/last-align/usr/share/man/man1//last-merge-batches.1 #help2man --no-info --version-string="961" \ # --name="Clean up MAF-format alignments" \ # /<>/scripts/last-reduce-alignments > /<>/debian/last-align/usr/share/man/man1//last-reduce-alignments.1 #help2man --no-info --version-string="961" \ # --name='Remove MAF-format alignments which are "dominated" by others' \ # /<>/scripts/last-remove-dominated > /<>/debian/last-align/usr/share/man/man1//last-remove-dominated.1 help2man --no-info --version-string="961" \ --name='Estimates "split" or "spliced" alignments.' \ /<>/src/last-split > /<>/debian/last-align/usr/share/man/man1//last-split.1 help2man --no-info --version-string="961" \ --name='Estimates "split" or "spliced" alignments.' \ /<>/src/last-split8 > /<>/debian/last-align/usr/share/man/man1//last-split8.1 help2man --no-info --version-string="961" \ --name="Join two or more sets of MAF-format multiple alignments" \ /<>/scripts/maf-join > /<>/debian/last-align/usr/share/man/man1//maf-join.1 help2man --no-info --version-string="961" \ --name="Convert MAF-format alignments to tabular format" \ /<>/scripts/maf-convert > /<>/debian/last-align/usr/share/man/man1//maf-convert.1 help2man --no-info --version-string="961" \ --name="Read 2 fastq files, and write them interleaved" \ /<>/scripts/fastq-interleave > /<>/debian/last-align/usr/share/man/man1//fastq-interleave.1 help2man --no-info --version-string="961" \ --name="Read files of lastal output, merge corresponding batches, and write them" \ /<>/src/last-merge-batches > /<>/debian/last-align/usr/share/man/man1//last-merge-batches.1 #help2man --no-info --version-string="961" \ # --name="Read alignments of paired DNA reads to a genome, and do estimations" \ # /<>/src/last-pair-probs > /<>/debian/last-align/usr/share/man/man1//last-pair-probs.1 help2man --no-info --version-string="961" \ --name="Get alignments that have a segment with score >= threshold, with gentle masking of lowercase letters" \ /<>/scripts/last-postmask > /<>/debian/last-align/usr/share/man/man1//last-postmask.1 help2man --no-info --version-string="961" \ --name="Try to find suitable score parameters for aligning the given sequences" \ /<>/scripts/last-train > /<>/debian/last-align/usr/share/man/man1//last-train.1 make[1]: Leaving directory '/<>' dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing last-align (in debian/last-align); do_strip: , oemstrip: pkgstriptranslations: processing last-align-dbgsym (in debian/.debhelper/last-align/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/last-align/DEBIAN/control, package last-align, directory debian/last-align .. removing usr/share/doc/last-align/changelog.gz pkgstripfiles: Truncating usr/share/doc/last-align/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package last-align ... pkgstripfiles: No PNG files. dpkg-deb: building package 'last-align' in '../last-align_961-1_amd64.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/last-align/dbgsym-root/DEBIAN/control, package last-align-dbgsym, directory debian/.debhelper/last-align/dbgsym-root dpkg-deb: building package 'last-align-dbgsym' in 'debian/.debhelper/scratch-space/build-last-align/last-align-dbgsym_961-1_amd64.deb'. Renaming last-align-dbgsym_961-1_amd64.deb to last-align-dbgsym_961-1_amd64.ddeb dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../last-align_961-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20181217-2317 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ last-align_961-1_amd64.changes: ------------------------------- Format: 1.8 Date: Mon, 17 Dec 2018 11:13:03 +0100 Source: last-align Binary: last-align Architecture: amd64 Version: 961-1 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: last-align - genome-scale comparison of biological sequences Changes: last-align (961-1) unstable; urgency=medium . [ Jelmer Vernooij ] * Use secure copyright file specification URI. * Trim trailing whitespace. . [ Andreas Tille ] * New upstream version * Remove trailing whitespace in debian/rules Checksums-Sha1: 4a480cf1e0bb6fd1c50570fff4b1ff7ae88da584 13277852 last-align-dbgsym_961-1_amd64.ddeb 217b8a228284dba455625e350b808e27260c1216 5750 last-align_961-1_amd64.buildinfo e9e1759f6cd3d859f508a45540def4dbdf953af1 748536 last-align_961-1_amd64.deb Checksums-Sha256: c85596e489963ba4b19abaf7b134358ef0f3992d1835b7c1fd1b45599960a53e 13277852 last-align-dbgsym_961-1_amd64.ddeb faabb0c836eb7b4f7af77e456abe5fef00a388d6828f312837ef16e1ef4957b3 5750 last-align_961-1_amd64.buildinfo 53a62f47bd2145235da06929e78a54c5c259956fa36a538a5a9fa29a39ee7cb5 748536 last-align_961-1_amd64.deb Files: 11045736842c95300e4bef4edfa6e904 13277852 debug optional last-align-dbgsym_961-1_amd64.ddeb e816ced62b2ff8be40e4004d3f781260 5750 science optional last-align_961-1_amd64.buildinfo 3815a74d3cf00dc97608b1d16cde4cee 748536 science optional last-align_961-1_amd64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ last-align_961-1_amd64.deb -------------------------- new debian package, version 2.0. size 748536 bytes: control archive=3576 bytes. 1260 bytes, 25 lines control 7245 bytes, 102 lines md5sums Package: last-align Version: 961-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3405 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 6), zlib1g (>= 1:1.1.4), parallel Recommends: python, python-pil Section: science Priority: optional Homepage: http://last.cbrc.jp/ Description: genome-scale comparison of biological sequences LAST is software for comparing and aligning sequences, typically DNA or protein sequences. LAST is similar to BLAST, but it copes better with very large amounts of sequence data. Here are two things LAST is good at: . * Comparing large (e.g. mammalian) genomes. * Mapping lots of sequence tags onto a genome. . The main technical innovation is that LAST finds initial matches based on their multiplicity, instead of using a fixed size (e.g. BLAST uses 10-mers). This allows one to map tags to genomes without repeat-masking, without becoming overwhelmed by repetitive hits. To find these variable-sized matches, it uses a suffix array (inspired by Vmatch). To achieve high sensitivity, it uses a discontiguous suffix array, analogous to spaced seeds. drwxr-xr-x root/root 0 2018-12-17 10:13 ./ drwxr-xr-x root/root 0 2018-12-17 10:13 ./usr/ drwxr-xr-x root/root 0 2018-12-17 10:13 ./usr/bin/ -rwxr-xr-x root/root 518 2018-12-17 10:13 ./usr/bin/fastq-interleave -rwxr-xr-x root/root 41467 2018-12-17 10:13 ./usr/bin/last-dotplot -rwxr-xr-x root/root 5072 2018-12-17 10:13 ./usr/bin/last-map-probs -rwxr-xr-x root/root 14440 2018-12-17 10:13 ./usr/bin/last-merge-batches -rwxr-xr-x root/root 72184 2018-12-17 10:13 ./usr/bin/last-pair-probs -rwxr-xr-x root/root 5541 2018-12-17 10:13 ./usr/bin/last-postmask -rwxr-xr-x root/root 158392 2018-12-17 10:13 ./usr/bin/last-split -rwxr-xr-x root/root 158392 2018-12-17 10:13 ./usr/bin/last-split8 -rwxr-xr-x root/root 20705 2018-12-17 10:13 ./usr/bin/last-train -rwxr-xr-x root/root 973088 2018-12-17 10:13 ./usr/bin/lastal -rwxr-xr-x root/root 977184 2018-12-17 10:13 ./usr/bin/lastal8 -rwxr-xr-x root/root 215352 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-------------------------------------------------------------------------------- Finished at 20181217-2317 Build needed 00:05:01, 170188k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15790326 Scanning for processes to kill in build PACKAGEBUILD-15790326