RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux lgw01-41 3.19.0-26-generic #28~14.04.1-Ubuntu SMP Wed Aug 12 14:09:17 UTC 2015 x86_64 Buildd toolchain package versions: launchpad-buildd_133 python-lpbuildd_133 sbuild_0.65.2-1ubuntu2~ubuntu14.04.1~ppa6 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.04.1 bzr_2.6.0+bzr6593-1ubuntu1.1 dpkg-dev_1.17.5ubuntu5.4 python-debian_0.1.27ubuntu1~ubuntu14.04.1~ppa1. Syncing the system clock with the buildd NTP service... 28 Aug 11:12:15 ntpdate[1647]: adjust time server 10.211.37.1 offset 0.000719 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-7845050', '/home/buildd/filecache-default/8b84b449aae33e903f03622347a6e5ad213248ca'] Unpacking chroot for build PACKAGEBUILD-7845050 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-7845050'] Mounting chroot for build PACKAGEBUILD-7845050 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-7845050', 'deb http://ftpmaster.internal/ubuntu wily main universe', 'deb http://ftpmaster.internal/ubuntu wily-security main universe', 'deb http://ftpmaster.internal/ubuntu wily-updates main universe', 'deb http://ftpmaster.internal/ubuntu wily-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-7845050 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-7845050', 'i386'] Updating debian chroot for build PACKAGEBUILD-7845050 Ign http://archive-team.internal wily InRelease Ign http://ftpmaster.internal wily InRelease Ign http://archive-team.internal wily Release.gpg Ign http://ftpmaster.internal wily-security InRelease Hit http://archive-team.internal wily Release Ign http://ftpmaster.internal wily-updates InRelease Ign http://archive-team.internal wily/main i386 Packages/DiffIndex Ign http://ftpmaster.internal wily-proposed InRelease Get:1 http://ftpmaster.internal wily Release.gpg [933 B] Get:2 http://ftpmaster.internal wily-security Release.gpg [933 B] Get:3 http://ftpmaster.internal wily-updates Release.gpg [933 B] Get:4 http://ftpmaster.internal wily-proposed Release.gpg [933 B] Ign http://archive-team.internal wily/main Translation-en Get:5 http://ftpmaster.internal wily Release [217 kB] Hit http://archive-team.internal wily/main i386 Packages Get:6 http://ftpmaster.internal wily-security Release [63.5 kB] Get:7 http://ftpmaster.internal wily-updates Release [63.5 kB] Get:8 http://ftpmaster.internal wily-proposed Release [217 kB] Get:9 http://ftpmaster.internal wily/main i386 Packages [1449 kB] Get:10 http://ftpmaster.internal wily/universe i386 Packages [6656 kB] Get:11 http://ftpmaster.internal wily/main Translation-en [847 kB] Get:12 http://ftpmaster.internal wily/universe Translation-en [4556 kB] Get:13 http://ftpmaster.internal wily-security/main i386 Packages [28 B] Get:14 http://ftpmaster.internal wily-security/universe i386 Packages [28 B] Get:15 http://ftpmaster.internal wily-security/main Translation-en [28 B] Get:16 http://ftpmaster.internal wily-security/universe Translation-en [28 B] Get:17 http://ftpmaster.internal wily-updates/main i386 Packages [28 B] Get:18 http://ftpmaster.internal wily-updates/universe i386 Packages [28 B] Get:19 http://ftpmaster.internal wily-updates/main Translation-en [28 B] Get:20 http://ftpmaster.internal wily-updates/universe Translation-en [28 B] Get:21 http://ftpmaster.internal wily-proposed/main i386 Packages [77.5 kB] Get:22 http://ftpmaster.internal wily-proposed/universe i386 Packages [201 kB] Get:23 http://ftpmaster.internal wily-proposed/main Translation-en [36.3 kB] Get:24 http://ftpmaster.internal wily-proposed/universe Translation-en [119 kB] Fetched 14.5 MB in 9s (1599 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libapt-pkg4.12 Use 'apt-get autoremove' to remove it. The following NEW packages will be installed: libapt-pkg4.16 The following packages will be upgraded: apt apt-transport-https bash build-essential cpp-5 debconf dpkg dpkg-dev g++-5 gcc-5 gcc-5-base libapparmor1 libasan2 libatomic1 libaudit-common libaudit1 libcc1-0 libcilkrts5 libcryptsetup4 libcurl3-gnutls libdbus-1-3 libdpkg-perl libgcc-5-dev libgcc1 libgomp1 libitm1 libkmod2 libmpx0 libpcre3 libquadmath0 libstdc++-5-dev libstdc++6 libsystemd0 libubsan0 libudev1 systemd systemd-sysv udev 38 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 93.3 MB of archives. After this operation, 374 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ wily/main bash i386 4.3-13ubuntu1 [591 kB] Get:2 http://ftpmaster.internal/ubuntu/ wily/main dpkg i386 1.18.2ubuntu3 [2112 kB] Get:3 http://ftpmaster.internal/ubuntu/ wily-proposed/main libgomp1 i386 5.2.1-15ubuntu5 [58.8 kB] Get:4 http://ftpmaster.internal/ubuntu/ wily-proposed/main libitm1 i386 5.2.1-15ubuntu5 [30.8 kB] Get:5 http://ftpmaster.internal/ubuntu/ wily-proposed/main libatomic1 i386 5.2.1-15ubuntu5 [9808 B] Get:6 http://ftpmaster.internal/ubuntu/ wily-proposed/main libasan2 i386 5.2.1-15ubuntu5 [271 kB] Get:7 http://ftpmaster.internal/ubuntu/ wily-proposed/main gcc-5-base i386 5.2.1-15ubuntu5 [17.0 kB] Get:8 http://ftpmaster.internal/ubuntu/ wily-proposed/main libgcc1 i386 1:5.2.1-15ubuntu5 [46.5 kB] Get:9 http://ftpmaster.internal/ubuntu/ wily-proposed/main libubsan0 i386 5.2.1-15ubuntu5 [111 kB] Get:10 http://ftpmaster.internal/ubuntu/ wily-proposed/main libcilkrts5 i386 5.2.1-15ubuntu5 [45.0 kB] Get:11 http://ftpmaster.internal/ubuntu/ wily-proposed/main libmpx0 i386 5.2.1-15ubuntu5 [11.3 kB] Get:12 http://ftpmaster.internal/ubuntu/ wily-proposed/main libquadmath0 i386 5.2.1-15ubuntu5 [203 kB] Get:13 http://ftpmaster.internal/ubuntu/ wily-proposed/main cpp-5 i386 5.2.1-15ubuntu5 [25.3 MB] Get:14 http://ftpmaster.internal/ubuntu/ wily-proposed/main libcc1-0 i386 5.2.1-15ubuntu5 [32.5 kB] Get:15 http://ftpmaster.internal/ubuntu/ wily-proposed/main g++-5 i386 5.2.1-15ubuntu5 [26.9 MB] Get:16 http://ftpmaster.internal/ubuntu/ wily-proposed/main gcc-5 i386 5.2.1-15ubuntu5 [25.5 MB] Get:17 http://ftpmaster.internal/ubuntu/ wily-proposed/main libgcc-5-dev i386 5.2.1-15ubuntu5 [2243 kB] Get:18 http://ftpmaster.internal/ubuntu/ wily-proposed/main libstdc++-5-dev i386 5.2.1-15ubuntu5 [1378 kB] Get:19 http://ftpmaster.internal/ubuntu/ wily-proposed/main libstdc++6 i386 5.2.1-15ubuntu5 [417 kB] Get:20 http://ftpmaster.internal/ubuntu/ wily/main libapt-pkg4.16 i386 1.0.9.10ubuntu6 [665 kB] Get:21 http://ftpmaster.internal/ubuntu/ wily/main apt i386 1.0.9.10ubuntu6 [988 kB] Get:22 http://ftpmaster.internal/ubuntu/ wily/main debconf all 1.5.57ubuntu1 [136 kB] Get:23 http://ftpmaster.internal/ubuntu/ wily/main libpcre3 i386 2:8.35-7ubuntu5 [221 kB] Get:24 http://ftpmaster.internal/ubuntu/ wily/main libsystemd0 i386 224-2ubuntu2 [215 kB] Get:25 http://ftpmaster.internal/ubuntu/ wily/main systemd i386 224-2ubuntu2 [3343 kB] Get:26 http://ftpmaster.internal/ubuntu/ wily/main libudev1 i386 224-2ubuntu2 [59.4 kB] Get:27 http://ftpmaster.internal/ubuntu/ wily/main udev i386 224-2ubuntu2 [976 kB] Get:28 http://ftpmaster.internal/ubuntu/ wily/main libkmod2 i386 21-1ubuntu1 [45.8 kB] Get:29 http://ftpmaster.internal/ubuntu/ wily/main libapparmor1 i386 2.10-0ubuntu4 [31.2 kB] Get:30 http://ftpmaster.internal/ubuntu/ wily/main libaudit-common all 1:2.4.2-1ubuntu1 [4080 B] Get:31 http://ftpmaster.internal/ubuntu/ wily/main libaudit1 i386 1:2.4.2-1ubuntu1 [36.5 kB] Get:32 http://ftpmaster.internal/ubuntu/ wily/main libcryptsetup4 i386 2:1.6.6-5ubuntu2 [80.7 kB] Get:33 http://ftpmaster.internal/ubuntu/ wily/main systemd-sysv i386 224-2ubuntu2 [15.1 kB] Get:34 http://ftpmaster.internal/ubuntu/ wily-proposed/main libcurl3-gnutls i386 7.43.0-1ubuntu2 [204 kB] Get:35 http://ftpmaster.internal/ubuntu/ wily/main apt-transport-https i386 1.0.9.10ubuntu6 [26.5 kB] Get:36 http://ftpmaster.internal/ubuntu/ wily/main libdbus-1-3 i386 1.9.20-1ubuntu2 [172 kB] Get:37 http://ftpmaster.internal/ubuntu/ wily/main dpkg-dev all 1.18.2ubuntu3 [583 kB] Get:38 http://ftpmaster.internal/ubuntu/ wily/main libdpkg-perl all 1.18.2ubuntu3 [194 kB] Get:39 http://ftpmaster.internal/ubuntu/ wily-proposed/main build-essential i386 12.1ubuntu1 [4792 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 93.3 MB in 10s (9062 kB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11705 files and directories currently installed.) Preparing to unpack .../bash_4.3-13ubuntu1_i386.deb ... Unpacking bash (4.3-13ubuntu1) over (4.3-11ubuntu3) ... Setting up bash (4.3-13ubuntu1) ... Installing new version of config file /etc/skel/.bashrc ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 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Unpacking libgcc1:i386 (1:5.2.1-15ubuntu5) over (1:5.2.1-15ubuntu1) ... Setting up libgcc1:i386 (1:5.2.1-15ubuntu5) ... Processing triggers for libc-bin (2.21-0ubuntu4) ... (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 ... 11702 files and directories currently installed.) Preparing to unpack .../libubsan0_5.2.1-15ubuntu5_i386.deb ... Unpacking libubsan0:i386 (5.2.1-15ubuntu5) over (5.2.1-15ubuntu1) ... Preparing to unpack .../libcilkrts5_5.2.1-15ubuntu5_i386.deb ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11735 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a2.4.2-1ubuntu1_all.deb ... Unpacking libaudit-common (1:2.4.2-1ubuntu1) over (1:2.3.7-1ubuntu3) ... Setting up libaudit-common (1:2.4.2-1ubuntu1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11735 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.4.2-1ubuntu1_i386.deb ... Unpacking libaudit1:i386 (1:2.4.2-1ubuntu1) over (1:2.3.7-1ubuntu3) ... Setting up libaudit1:i386 (1:2.4.2-1ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu4) ... (Reading database ... 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Unpacking libdbus-1-3:i386 (1.9.20-1ubuntu2) over (1.8.12-1ubuntu5) ... Preparing to unpack .../dpkg-dev_1.18.2ubuntu3_all.deb ... Unpacking dpkg-dev (1.18.2ubuntu3) over (1.18.1ubuntu1) ... Preparing to unpack .../libdpkg-perl_1.18.2ubuntu3_all.deb ... Unpacking libdpkg-perl (1.18.2ubuntu3) over (1.18.1ubuntu1) ... Preparing to unpack .../build-essential_12.1ubuntu1_i386.deb ... Unpacking build-essential (12.1ubuntu1) over (11.6ubuntu6) ... Setting up libgomp1:i386 (5.2.1-15ubuntu5) ... Setting up libitm1:i386 (5.2.1-15ubuntu5) ... Setting up libatomic1:i386 (5.2.1-15ubuntu5) ... Setting up libasan2:i386 (5.2.1-15ubuntu5) ... Setting up libubsan0:i386 (5.2.1-15ubuntu5) ... Setting up libcilkrts5:i386 (5.2.1-15ubuntu5) ... Setting up libmpx0:i386 (5.2.1-15ubuntu5) ... Setting up libquadmath0:i386 (5.2.1-15ubuntu5) ... Setting up cpp-5 (5.2.1-15ubuntu5) ... Setting up libcc1-0:i386 (5.2.1-15ubuntu5) ... Setting up libgcc-5-dev:i386 (5.2.1-15ubuntu5) ... Setting up gcc-5 (5.2.1-15ubuntu5) ... Setting up libstdc++-5-dev:i386 (5.2.1-15ubuntu5) ... Setting up g++-5 (5.2.1-15ubuntu5) ... Setting up libcurl3-gnutls:i386 (7.43.0-1ubuntu2) ... Setting up apt-transport-https (1.0.9.10ubuntu6) ... Setting up libdbus-1-3:i386 (1.9.20-1ubuntu2) ... Setting up libdpkg-perl (1.18.2ubuntu3) ... Setting up dpkg-dev (1.18.2ubuntu3) ... Setting up build-essential (12.1ubuntu1) ... Processing triggers for libc-bin (2.21-0ubuntu4) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-7845050', 'i386', 'wily-proposed', '-c', 'chroot:autobuild', '--arch=i386', '--dist=wily-proposed', '--purge=never', '--nolog', 'mira_4.9.5-1build1.dsc'] Initiating build PACKAGEBUILD-7845050 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 3.19.0-26-generic #28~14.04.1-Ubuntu SMP Wed Aug 12 14:09:17 UTC 2015 i686 sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on lgw01-41.buildd ╔══════════════════════════════════════════════════════════════════════════════╗ ║ mira 4.9.5-1build1 (i386) 28 Aug 2015 11:13 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: mira Version: 4.9.5-1build1 Source Version: 4.9.5-1build1 Distribution: wily-proposed Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/mira-3aVZya/mira-4.9.5' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/mira-3aVZya' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-7845050/chroot-autobuild' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Local sources ───────────── mira_4.9.5-1build1.dsc exists in .; copying to chroot Check architectures ─────────────────── Check dependencies ────────────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/«BUILDDIR»/resolver-Q1hD_1/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign file: ./ InRelease Ign file: ./ Release.gpg Get:1 file: ./ Release [2119 B] Ign file: ./ Translation-en 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 package was automatically installed and is no longer required: libapt-pkg4.12 Use 'apt-get autoremove' to remove it. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/770 B of archives. After this operation, 0 B of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed Authentication warning overridden. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11733 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:5.2), g++ (>= 4:5.2), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dblatex, dh-autoreconf, autoconf-archive, docbook-xsl, libboost-all-dev, libbz2-dev, libexpat1-dev, libgoogle-perftools-dev, perl, flex, vim-common, zlib1g-dev Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:5.2), g++ (>= 4:5.2), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dblatex, dh-autoreconf, autoconf-archive, docbook-xsl, libboost-all-dev, libbz2-dev, libexpat1-dev, libgoogle-perftools-dev, perl, flex, vim-common, zlib1g-dev dpkg-deb: building package 'sbuild-build-depends-mira-dummy' in '/«BUILDDIR»/resolver-816QxM/apt_archive/sbuild-build-depends-mira-dummy.deb'. Ign file: ./ InRelease Ign file: ./ Release.gpg Get:1 file: ./ Release [2119 B] Ign file: ./ Translation-en Reading package lists... Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install mira build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libapt-pkg4.12 Use 'apt-get autoremove' to remove it. The following extra packages will be installed: autoconf autoconf-archive automake autopoint autotools-dev bsdmainutils dblatex debhelper dh-autoreconf docbook-xml docbook-xsl file flex fontconfig-config fonts-dejavu-core gettext gettext-base groff-base icu-devtools intltool-debian libapt-inst1.7 libasprintf0v5 libavahi-client3 libavahi-common-data libavahi-common3 libboost-all-dev libboost-atomic-dev libboost-atomic1.58-dev libboost-atomic1.58.0 libboost-chrono-dev libboost-chrono1.58-dev libboost-chrono1.58.0 libboost-context-dev libboost-context1.58-dev libboost-context1.58.0 libboost-coroutine-dev libboost-coroutine1.58-dev libboost-date-time-dev libboost-date-time1.58-dev libboost-date-time1.58.0 libboost-dev libboost-exception-dev libboost-exception1.58-dev libboost-filesystem-dev libboost-filesystem1.58-dev libboost-filesystem1.58.0 libboost-graph-dev libboost-graph-parallel-dev libboost-graph-parallel1.58-dev libboost-graph-parallel1.58.0 libboost-graph1.58-dev libboost-graph1.58.0 libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0 libboost-locale-dev libboost-locale1.58-dev libboost-locale1.58.0 libboost-log-dev libboost-log1.58-dev libboost-log1.58.0 libboost-math-dev libboost-math1.58-dev libboost-math1.58.0 libboost-mpi-dev libboost-mpi-python-dev libboost-mpi-python1.58-dev libboost-mpi-python1.58.0 libboost-mpi1.58-dev libboost-mpi1.58.0 libboost-program-options-dev libboost-program-options1.58-dev libboost-program-options1.58.0 libboost-python-dev libboost-python1.58-dev libboost-python1.58.0 libboost-random-dev libboost-random1.58-dev libboost-random1.58.0 libboost-regex-dev libboost-regex1.58-dev libboost-regex1.58.0 libboost-serialization-dev libboost-serialization1.58-dev libboost-serialization1.58.0 libboost-signals-dev libboost-signals1.58-dev libboost-signals1.58.0 libboost-system-dev libboost-system1.58-dev libboost-system1.58.0 libboost-test-dev libboost-test1.58-dev libboost-test1.58.0 libboost-thread-dev libboost-thread1.58-dev libboost-thread1.58.0 libboost-timer-dev libboost-timer1.58-dev libboost-timer1.58.0 libboost-tools-dev libboost-wave-dev libboost-wave1.58-dev libboost-wave1.58.0 libboost1.58-dev libboost1.58-tools-dev libbz2-dev libcr0 libcroco3 libcups2 libcupsfilters1 libcupsimage2 libexpat1 libexpat1-dev libfl-dev libfontconfig1 libfreetype6 libglib2.0-0 libgoogle-perftools-dev libgoogle-perftools4 libgraphite2-3 libgs9 libgs9-common libharfbuzz-icu0 libharfbuzz0b libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libice6 libicu-dev libicu55 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libkpathsea6 liblcms2-2 libltdl-dev libltdl7 libmagic1 libnuma-dev libnuma1 libopenmpi-dev libopenmpi1.6 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpoppler52 libpotrace0 libptexenc1 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libsm6 libsynctex1 libtcmalloc-minimal4 libtexlua52 libtexluajit2 libtiff5 libtool libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxslt1.1 libxt6 libzzip-0-13 m4 man-db mime-support mpi-default-bin mpi-default-dev openmpi-bin openmpi-common po-debconf poppler-data preview-latex-style python python-apt python-apt-common python-dev python-minimal python2.7 python2.7-dev python2.7-minimal sgml-base sgml-data tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-extra-utils texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-math-extra texlive-pictures ucf vim-common x11-common xdg-utils xml-core xsltproc zlib1g-dev Suggested packages: gnu-standards autoconf-doc wamerican wordlist whois vacation docbook ghostscript graphicsmagick-imagemagick-compat imagemagick latex-cjk-all lmodern opensp pdf-viewer texlive-lang-all texlive-lang-cyrillic texlive-xetex transfig dh-make docbook-dsssl docbook-defguide dbtoepub docbook-xsl-doc-html docbook-xsl-doc-pdf docbook-xsl-doc-text docbook-xsl-doc docbook-xsl-saxon fop libsaxon-java libxalan2-java libxslthl-java xalan bison gettext-doc groff libboost-doc graphviz python3 libboost1.58-doc gccxml libmpfrc++-dev libntl-dev doxygen default-jdk blcr-dkms cups-common fonts-droid libhwloc-contrib-plugins icu-doc liblcms2-utils libtool-doc automaken gfortran fortran95-compiler gcj-jdk less www-browser openmpi-checkpoint libmail-box-perl poppler-utils fonts-japanese-mincho fonts-ipafont-mincho fonts-japanese-gothic fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum python-doc python-tk python-apt-dbg python-apt-doc python2.7-doc binfmt-support sgml-base-doc perlsgml w3-recs gv postscript-viewer perl-tk latexmk chktex lacheck latexdiff xindy purifyeps fragmaster dvidvi dvipng libfile-which-perl libspreadsheet-parseexcel-perl python-pygments texlive-pstricks dot2tex libtcltk-ruby prerex gvfs-bin Recommended packages: libxml2-utils curl wget lynx-cur libasprintf-dev libgettextpo-dev bzip2-doc libglib2.0-data shared-mime-info xdg-user-dirs libhwloc-plugins libmail-sendmail-perl lsb-release iso-codes ruby wish libyaml-tiny-perl libfile-homedir-perl tex-gyre texlive-fonts-recommended-doc tipa texlive-latex-base-doc texlive-latex-extra-doc prosper texlive-latex-recommended-doc texlive-pictures-doc vim vim-gnome vim-gtk vim-athena vim-nox vim-tiny libfile-mimeinfo-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf autoconf-archive automake autopoint autotools-dev bsdmainutils dblatex debhelper dh-autoreconf docbook-xml docbook-xsl file flex fontconfig-config fonts-dejavu-core gettext gettext-base groff-base icu-devtools intltool-debian libapt-inst1.7 libasprintf0v5 libavahi-client3 libavahi-common-data libavahi-common3 libboost-all-dev libboost-atomic-dev libboost-atomic1.58-dev libboost-atomic1.58.0 libboost-chrono-dev libboost-chrono1.58-dev libboost-chrono1.58.0 libboost-context-dev libboost-context1.58-dev libboost-context1.58.0 libboost-coroutine-dev libboost-coroutine1.58-dev libboost-date-time-dev libboost-date-time1.58-dev libboost-date-time1.58.0 libboost-dev libboost-exception-dev libboost-exception1.58-dev libboost-filesystem-dev libboost-filesystem1.58-dev libboost-filesystem1.58.0 libboost-graph-dev libboost-graph-parallel-dev libboost-graph-parallel1.58-dev libboost-graph-parallel1.58.0 libboost-graph1.58-dev libboost-graph1.58.0 libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0 libboost-locale-dev libboost-locale1.58-dev libboost-locale1.58.0 libboost-log-dev libboost-log1.58-dev libboost-log1.58.0 libboost-math-dev libboost-math1.58-dev libboost-math1.58.0 libboost-mpi-dev libboost-mpi-python-dev libboost-mpi-python1.58-dev libboost-mpi-python1.58.0 libboost-mpi1.58-dev libboost-mpi1.58.0 libboost-program-options-dev libboost-program-options1.58-dev libboost-program-options1.58.0 libboost-python-dev libboost-python1.58-dev libboost-python1.58.0 libboost-random-dev libboost-random1.58-dev libboost-random1.58.0 libboost-regex-dev libboost-regex1.58-dev libboost-regex1.58.0 libboost-serialization-dev libboost-serialization1.58-dev libboost-serialization1.58.0 libboost-signals-dev libboost-signals1.58-dev libboost-signals1.58.0 libboost-system-dev libboost-system1.58-dev libboost-system1.58.0 libboost-test-dev libboost-test1.58-dev libboost-test1.58.0 libboost-thread-dev libboost-thread1.58-dev libboost-thread1.58.0 libboost-timer-dev libboost-timer1.58-dev libboost-timer1.58.0 libboost-tools-dev libboost-wave-dev libboost-wave1.58-dev libboost-wave1.58.0 libboost1.58-dev libboost1.58-tools-dev libbz2-dev libcr0 libcroco3 libcups2 libcupsfilters1 libcupsimage2 libexpat1 libexpat1-dev libfl-dev libfontconfig1 libfreetype6 libglib2.0-0 libgoogle-perftools-dev libgoogle-perftools4 libgraphite2-3 libgs9 libgs9-common libharfbuzz-icu0 libharfbuzz0b libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libice6 libicu-dev libicu55 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libkpathsea6 liblcms2-2 libltdl-dev libltdl7 libmagic1 libnuma-dev libnuma1 libopenmpi-dev libopenmpi1.6 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpoppler52 libpotrace0 libptexenc1 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libsm6 libsynctex1 libtcmalloc-minimal4 libtexlua52 libtexluajit2 libtiff5 libtool libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxslt1.1 libxt6 libzzip-0-13 m4 man-db mime-support mpi-default-bin mpi-default-dev openmpi-bin openmpi-common po-debconf poppler-data preview-latex-style python python-apt python-apt-common python-dev python-minimal python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-mira-dummy sgml-base sgml-data tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-extra-utils texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-math-extra texlive-pictures ucf vim-common x11-common xdg-utils xml-core xsltproc zlib1g-dev 0 upgraded, 222 newly installed, 0 to remove and 0 not upgraded. Need to get 203 MB/203 MB of archives. After this operation, 737 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-mira-dummy Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ wily/main libasprintf0v5 i386 0.19.4-1ubuntu3 [6706 B] Get:2 http://ftpmaster.internal/ubuntu/ wily/main libxau6 i386 1:1.0.8-1 [8352 B] Get:3 http://ftpmaster.internal/ubuntu/ wily/main libxdmcp6 i386 1:1.1.2-1 [11.5 kB] Get:4 http://ftpmaster.internal/ubuntu/ wily/main libxcb1 i386 1.11-0ubuntu1 [43.8 kB] Get:5 http://ftpmaster.internal/ubuntu/ wily/main libx11-data all 2:1.6.3-1ubuntu1 [113 kB] Get:6 http://ftpmaster.internal/ubuntu/ wily/main libx11-6 i386 2:1.6.3-1ubuntu1 [592 kB] Get:7 http://ftpmaster.internal/ubuntu/ wily/main libxext6 i386 2:1.3.3-1 [31.6 kB] Get:8 http://ftpmaster.internal/ubuntu/ wily/main groff-base i386 1.22.3-1 [1186 kB] Get:9 http://ftpmaster.internal/ubuntu/ wily/main bsdmainutils i386 9.0.6ubuntu1 [175 kB] Get:10 http://ftpmaster.internal/ubuntu/ wily/main libpipeline1 i386 1.4.1-1 [26.7 kB] Get:11 http://ftpmaster.internal/ubuntu/ wily/main man-db i386 2.7.2-1 [868 kB] Get:12 http://ftpmaster.internal/ubuntu/ wily/main sgml-base all 1.26+nmu4ubuntu1 [12.5 kB] Get:13 http://ftpmaster.internal/ubuntu/ wily/main autoconf-archive all 20150224-2.1 [629 kB] Get:14 http://ftpmaster.internal/ubuntu/ wily/main libsigsegv2 i386 2.10-4 [14.0 kB] Get:15 http://ftpmaster.internal/ubuntu/ wily/main m4 i386 1.4.17-4 [190 kB] Get:16 http://ftpmaster.internal/ubuntu/ wily/main libfl-dev i386 2.5.39-8 [13.1 kB] Get:17 http://ftpmaster.internal/ubuntu/ wily/main flex i386 2.5.39-8 [276 kB] Get:18 http://ftpmaster.internal/ubuntu/ wily/main libavahi-common-data i386 0.6.31-4ubuntu4 [20.9 kB] Get:19 http://ftpmaster.internal/ubuntu/ wily/main libavahi-common3 i386 0.6.31-4ubuntu4 [23.9 kB] Get:20 http://ftpmaster.internal/ubuntu/ wily/main libavahi-client3 i386 0.6.31-4ubuntu4 [27.5 kB] Get:21 http://ftpmaster.internal/ubuntu/ wily/main libglib2.0-0 i386 2.45.6-1 [1171 kB] Get:22 http://ftpmaster.internal/ubuntu/ wily/main libicu55 i386 55.1-4 [7758 kB] Get:23 http://ftpmaster.internal/ubuntu/ wily/main libxml2 i386 2.9.2+dfsg1-3ubuntu1 [724 kB] Get:24 http://ftpmaster.internal/ubuntu/ wily/main libcroco3 i386 0.6.8-3 [89.2 kB] Get:25 http://ftpmaster.internal/ubuntu/ wily/main fonts-dejavu-core all 2.35-1 [1039 kB] Get:26 http://ftpmaster.internal/ubuntu/ wily/main ucf all 3.0030 [55.5 kB] Get:27 http://ftpmaster.internal/ubuntu/ wily/main fontconfig-config all 2.11.1-0ubuntu6 [48.7 kB] Get:28 http://ftpmaster.internal/ubuntu/ wily/main libexpat1 i386 2.1.0-7 [74.3 kB] Get:29 http://ftpmaster.internal/ubuntu/ wily/main libfreetype6 i386 2.5.2-4ubuntu1 [328 kB] Get:30 http://ftpmaster.internal/ubuntu/ wily/main libfontconfig1 i386 2.11.1-0ubuntu6 [135 kB] Get:31 http://ftpmaster.internal/ubuntu/ wily/main libgraphite2-3 i386 1.2.4-3ubuntu1 [57.5 kB] Get:32 http://ftpmaster.internal/ubuntu/ wily/main x11-common all 1:7.7+7ubuntu4 [58.6 kB] Get:33 http://ftpmaster.internal/ubuntu/ wily/main libice6 i386 2:1.0.9-1 [38.2 kB] Get:34 http://ftpmaster.internal/ubuntu/ wily/main libjpeg-turbo8 i386 1.3.0-0ubuntu2 [107 kB] Get:35 http://ftpmaster.internal/ubuntu/ wily/main liblcms2-2 i386 2.6-3ubuntu2 [147 kB] Get:36 http://ftpmaster.internal/ubuntu/ wily/main libltdl7 i386 2.4.2-1.11 [36.8 kB] Get:37 http://ftpmaster.internal/ubuntu/ wily/main libpaper1 i386 1.1.24+nmu2ubuntu3 [13.4 kB] Get:38 http://ftpmaster.internal/ubuntu/ wily/main libpixman-1-0 i386 0.32.6-3 [233 kB] Get:39 http://ftpmaster.internal/ubuntu/ wily/main libpython2.7-minimal i386 2.7.10-3 [338 kB] Get:40 http://ftpmaster.internal/ubuntu/ wily/main mime-support all 3.58ubuntu1 [31.6 kB] Get:41 http://ftpmaster.internal/ubuntu/ wily/main libpython2.7-stdlib i386 2.7.10-3 [1807 kB] Get:42 http://ftpmaster.internal/ubuntu/ wily/main libpython2.7 i386 2.7.10-3 [1101 kB] Get:43 http://ftpmaster.internal/ubuntu/ wily/main libexpat1-dev i386 2.1.0-7 [116 kB] Get:44 http://ftpmaster.internal/ubuntu/ wily/main libpython2.7-dev i386 2.7.10-3 [18.6 MB] Get:45 http://ftpmaster.internal/ubuntu/ wily/main libsm6 i386 2:1.2.2-1 [14.8 kB] Get:46 http://ftpmaster.internal/ubuntu/ wily/main libjbig0 i386 2.1-3.1 [27.0 kB] Get:47 http://ftpmaster.internal/ubuntu/ wily/main libjpeg8 i386 8c-2ubuntu8 [2188 B] Get:48 http://ftpmaster.internal/ubuntu/ wily/main libtiff5 i386 4.0.3-12.3ubuntu2 [154 kB] Get:49 http://ftpmaster.internal/ubuntu/ wily/main libunistring0 i386 0.9.3-5.2ubuntu1 [277 kB] Get:50 http://ftpmaster.internal/ubuntu/ wily/main libxi6 i386 2:1.7.4-1 [29.9 kB] Get:51 http://ftpmaster.internal/ubuntu/ wily/main libxt6 i386 1:1.1.5-0ubuntu1 [164 kB] Get:52 http://ftpmaster.internal/ubuntu/ wily/main libxmu6 i386 2:1.1.2-1 [44.6 kB] Get:53 http://ftpmaster.internal/ubuntu/ wily/main libxpm4 i386 1:3.5.11-1 [32.1 kB] Get:54 http://ftpmaster.internal/ubuntu/ wily/main libxslt1.1 i386 1.1.28-2build2 [155 kB] Get:55 http://ftpmaster.internal/ubuntu/ wily/main libzzip-0-13 i386 0.13.62-3 [27.5 kB] Get:56 http://ftpmaster.internal/ubuntu/ wily/main poppler-data all 0.4.7-3 [1473 kB] Get:57 http://ftpmaster.internal/ubuntu/ wily/main python2.7-minimal i386 2.7.10-3 [1093 kB] Get:58 http://ftpmaster.internal/ubuntu/ wily/main python-minimal i386 2.7.9-1 [28.3 kB] Get:59 http://ftpmaster.internal/ubuntu/ wily/main python2.7 i386 2.7.10-3 [211 kB] Get:60 http://ftpmaster.internal/ubuntu/ wily/main libpython-stdlib i386 2.7.9-1 [7786 B] Get:61 http://ftpmaster.internal/ubuntu/ wily/main python i386 2.7.9-1 [137 kB] Get:62 http://ftpmaster.internal/ubuntu/ wily/main libnuma1 i386 2.0.10-1ubuntu3 [22.3 kB] Get:63 http://ftpmaster.internal/ubuntu/ wily/universe libhwloc5 i386 1.11.0-1 [86.5 kB] Get:64 http://ftpmaster.internal/ubuntu/ wily/main libmagic1 i386 1:5.22+15-2ubuntu1 [216 kB] Get:65 http://ftpmaster.internal/ubuntu/ wily/main file i386 1:5.22+15-2ubuntu1 [20.6 kB] Get:66 http://ftpmaster.internal/ubuntu/ wily/main libapt-inst1.7 i386 1.0.9.10ubuntu6 [59.4 kB] Get:67 http://ftpmaster.internal/ubuntu/ wily/main vim-common i386 2:7.4.712-2ubuntu2 [103 kB] Get:68 http://ftpmaster.internal/ubuntu/ wily/main gettext-base i386 0.19.4-1ubuntu3 [49.2 kB] Get:69 http://ftpmaster.internal/ubuntu/ wily/main python-apt-common all 1.0.0~beta3.1ubuntu1 [18.1 kB] Get:70 http://ftpmaster.internal/ubuntu/ wily/main xml-core all 0.13+nmu2 [23.3 kB] Get:71 http://ftpmaster.internal/ubuntu/ wily/main autoconf all 2.69-8 [321 kB] Get:72 http://ftpmaster.internal/ubuntu/ wily/main autotools-dev all 20140911.1 [39.6 kB] Get:73 http://ftpmaster.internal/ubuntu/ wily/main automake all 1:1.15-1ubuntu1 [511 kB] Get:74 http://ftpmaster.internal/ubuntu/ wily/main autopoint all 0.19.4-1ubuntu3 [390 kB] Get:75 http://ftpmaster.internal/ubuntu/ wily/main sgml-data all 2.0.10 [173 kB] Get:76 http://ftpmaster.internal/ubuntu/ wily/main docbook-xml all 4.5-7.3 [74.4 kB] Get:77 http://ftpmaster.internal/ubuntu/ wily/main xsltproc i386 1.1.28-2build2 [13.9 kB] Get:78 http://ftpmaster.internal/ubuntu/ wily/main python-apt i386 1.0.0~beta3.1ubuntu1 [144 kB] Get:79 http://ftpmaster.internal/ubuntu/ wily/main tex-common all 6.02 [591 kB] Get:80 http://ftpmaster.internal/ubuntu/ wily/main libkpathsea6 i386 2015.20150524.37493-5build1 [58.6 kB] Get:81 http://ftpmaster.internal/ubuntu/ wily/main libptexenc1 i386 2015.20150524.37493-5build1 [35.3 kB] Get:82 http://ftpmaster.internal/ubuntu/ wily/main libsynctex1 i386 2015.20150524.37493-5build1 [43.7 kB] Get:83 http://ftpmaster.internal/ubuntu/ wily/main libtexlua52 i386 2015.20150524.37493-5build1 [100 kB] Get:84 http://ftpmaster.internal/ubuntu/ wily/main libtexluajit2 i386 2015.20150524.37493-5build1 [226 kB] Get:85 http://ftpmaster.internal/ubuntu/ wily/main libcups2 i386 2.1~rc1-3 [211 kB] Get:86 http://ftpmaster.internal/ubuntu/ wily/main libcupsfilters1 i386 1.0.74-1 [80.9 kB] Get:87 http://ftpmaster.internal/ubuntu/ wily/main libcupsimage2 i386 2.1~rc1-3 [16.9 kB] Get:88 http://ftpmaster.internal/ubuntu/ wily/main libijs-0.35 i386 0.35-11 [16.1 kB] Get:89 http://ftpmaster.internal/ubuntu/ wily/main libjbig2dec0 i386 0.12-2 [57.7 kB] Get:90 http://ftpmaster.internal/ubuntu/ wily/main libgs9-common all 9.16~dfsg~0-0ubuntu1 [2941 kB] Get:91 http://ftpmaster.internal/ubuntu/ wily/main libgs9 i386 9.16~dfsg~0-0ubuntu1 [2158 kB] Get:92 http://ftpmaster.internal/ubuntu/ wily/main libharfbuzz0b i386 1.0.1-1build1 [148 kB] Get:93 http://ftpmaster.internal/ubuntu/ wily/main libharfbuzz-icu0 i386 1.0.1-1build1 [5402 B] Get:94 http://ftpmaster.internal/ubuntu/ wily/main libpoppler52 i386 0.33.0-0ubuntu3 [782 kB] Get:95 http://ftpmaster.internal/ubuntu/ wily/main libpotrace0 i386 1.12-1 [17.0 kB] Get:96 http://ftpmaster.internal/ubuntu/ wily/main libxaw7 i386 2:1.0.13-1 [182 kB] Get:97 http://ftpmaster.internal/ubuntu/ wily/main texlive-binaries i386 2015.20150524.37493-5build1 [9435 kB] Get:98 http://ftpmaster.internal/ubuntu/ wily/main libpaper-utils i386 1.1.24+nmu2ubuntu3 [8096 B] Get:99 http://ftpmaster.internal/ubuntu/ wily/main xdg-utils all 1.1.0~rc1-2ubuntu11 [54.1 kB] Get:100 http://ftpmaster.internal/ubuntu/ wily/main texlive-base all 2015.20150625-1ubuntu1 [18.1 MB] Get:101 http://ftpmaster.internal/ubuntu/ wily/main texlive-latex-base all 2015.20150625-1ubuntu1 [968 kB] Get:102 http://ftpmaster.internal/ubuntu/ wily/main texlive-fonts-recommended all 2015.20150625-1ubuntu1 [5704 kB] Get:103 http://ftpmaster.internal/ubuntu/ wily/main texlive-latex-recommended all 2015.20150625-1ubuntu1 [10.2 MB] Get:104 http://ftpmaster.internal/ubuntu/ wily/main texlive all 2015.20150625-1ubuntu1 [14.3 kB] Get:105 http://ftpmaster.internal/ubuntu/ wily/main texlive-bibtex-extra all 2015.20150810-1 [34.9 MB] Get:106 http://ftpmaster.internal/ubuntu/ wily/main texlive-pictures all 2015.20150625-1ubuntu1 [3089 kB] Get:107 http://ftpmaster.internal/ubuntu/ wily/main preview-latex-style all 11.88-1ubuntu1 [186 kB] Get:108 http://ftpmaster.internal/ubuntu/ wily/main texlive-latex-extra all 2015.20150810-1 [9689 kB] Get:109 http://ftpmaster.internal/ubuntu/ wily/main texlive-math-extra all 2015.20150810-1 [15.4 MB] Get:110 http://ftpmaster.internal/ubuntu/ wily/main texlive-extra-utils all 2015.20150810-1 [11.1 MB] Get:111 http://ftpmaster.internal/ubuntu/ wily/main dblatex all 0.3.5-2 [1412 kB] Get:112 http://ftpmaster.internal/ubuntu/ wily/main gettext i386 0.19.4-1ubuntu3 [864 kB] Get:113 http://ftpmaster.internal/ubuntu/ wily/main intltool-debian all 0.35.0+20060710.2 [24.5 kB] Get:114 http://ftpmaster.internal/ubuntu/ wily/main po-debconf all 1.0.18 [234 kB] Get:115 http://ftpmaster.internal/ubuntu/ wily/main debhelper all 9.20150811ubuntu1 [731 kB] Get:116 http://ftpmaster.internal/ubuntu/ wily/main libtool all 2.4.2-1.11 [180 kB] Get:117 http://ftpmaster.internal/ubuntu/ wily/main dh-autoreconf all 10 [15.3 kB] Get:118 http://ftpmaster.internal/ubuntu/ wily/main docbook-xsl all 1.78.1+dfsg-1 [2146 kB] Get:119 http://ftpmaster.internal/ubuntu/ wily/main icu-devtools i386 55.1-4 [171 kB] Get:120 http://ftpmaster.internal/ubuntu/ wily/main libboost1.58-dev i386 1.58.0+dfsg-0ubuntu5 [6233 kB] Get:121 http://ftpmaster.internal/ubuntu/ wily/main libboost-dev i386 1.58.0.0ubuntu1 [3134 B] Get:122 http://ftpmaster.internal/ubuntu/ wily/main libboost1.58-tools-dev i386 1.58.0+dfsg-0ubuntu5 [1174 kB] Get:123 http://ftpmaster.internal/ubuntu/ wily/universe libboost-tools-dev i386 1.58.0.0ubuntu1 [2970 B] Get:124 http://ftpmaster.internal/ubuntu/ wily/main libboost-atomic1.58.0 i386 1.58.0+dfsg-0ubuntu5 [7532 B] Get:125 http://ftpmaster.internal/ubuntu/ wily/main libboost-atomic1.58-dev i386 1.58.0+dfsg-0ubuntu5 [5070 B] Get:126 http://ftpmaster.internal/ubuntu/ wily/universe libboost-atomic-dev i386 1.58.0.0ubuntu1 [3104 B] Get:127 http://ftpmaster.internal/ubuntu/ wily/main libboost-system1.58.0 i386 1.58.0+dfsg-0ubuntu5 [9634 B] Get:128 http://ftpmaster.internal/ubuntu/ wily/main libboost-chrono1.58.0 i386 1.58.0+dfsg-0ubuntu5 [13.8 kB] Get:129 http://ftpmaster.internal/ubuntu/ wily/main libboost-chrono1.58-dev i386 1.58.0+dfsg-0ubuntu5 [15.5 kB] Get:130 http://ftpmaster.internal/ubuntu/ wily/universe libboost-chrono-dev i386 1.58.0.0ubuntu1 [3432 B] Get:131 http://ftpmaster.internal/ubuntu/ wily/main libboost-thread1.58.0 i386 1.58.0+dfsg-0ubuntu5 [48.3 kB] Get:132 http://ftpmaster.internal/ubuntu/ wily/main libboost-context1.58.0 i386 1.58.0+dfsg-0ubuntu5 [19.3 kB] Get:133 http://ftpmaster.internal/ubuntu/ wily/main libboost-context1.58-dev i386 1.58.0+dfsg-0ubuntu5 [19.0 kB] Get:134 http://ftpmaster.internal/ubuntu/ wily/universe libboost-context-dev i386 1.58.0.0ubuntu1 [2990 B] Get:135 http://ftpmaster.internal/ubuntu/ wily/main libboost-coroutine1.58-dev i386 1.58.0+dfsg-0ubuntu5 [21.4 kB] Get:136 http://ftpmaster.internal/ubuntu/ wily/universe libboost-coroutine-dev i386 1.58.0.0ubuntu1 [3078 B] Get:137 http://ftpmaster.internal/ubuntu/ wily/main libboost-date-time1.58.0 i386 1.58.0+dfsg-0ubuntu5 [21.0 kB] Get:138 http://ftpmaster.internal/ubuntu/ wily/main libboost-serialization1.58.0 i386 1.58.0+dfsg-0ubuntu5 [121 kB] Get:139 http://ftpmaster.internal/ubuntu/ wily/main libboost-serialization1.58-dev i386 1.58.0+dfsg-0ubuntu5 [149 kB] Get:140 http://ftpmaster.internal/ubuntu/ wily/main libboost-date-time1.58-dev i386 1.58.0+dfsg-0ubuntu5 [27.1 kB] Get:141 http://ftpmaster.internal/ubuntu/ wily/main libboost-date-time-dev i386 1.58.0.0ubuntu1 [2810 B] Get:142 http://ftpmaster.internal/ubuntu/ wily/main libboost-exception1.58-dev i386 1.58.0+dfsg-0ubuntu5 [4496 B] Get:143 http://ftpmaster.internal/ubuntu/ wily/universe libboost-exception-dev i386 1.58.0.0ubuntu1 [2786 B] Get:144 http://ftpmaster.internal/ubuntu/ wily/main libboost-filesystem1.58.0 i386 1.58.0+dfsg-0ubuntu5 [41.2 kB] Get:145 http://ftpmaster.internal/ubuntu/ wily/main libboost-system1.58-dev i386 1.58.0+dfsg-0ubuntu5 [9466 B] Get:146 http://ftpmaster.internal/ubuntu/ wily/main libboost-filesystem1.58-dev i386 1.58.0+dfsg-0ubuntu5 [50.2 kB] Get:147 http://ftpmaster.internal/ubuntu/ wily/main libboost-filesystem-dev i386 1.58.0.0ubuntu1 [2824 B] Get:148 http://ftpmaster.internal/ubuntu/ wily/main libboost-regex1.58.0 i386 1.58.0+dfsg-0ubuntu5 [284 kB] Get:149 http://ftpmaster.internal/ubuntu/ wily/main libboost-graph1.58.0 i386 1.58.0+dfsg-0ubuntu5 [96.5 kB] Get:150 http://ftpmaster.internal/ubuntu/ wily/main libboost-test1.58.0 i386 1.58.0+dfsg-0ubuntu5 [185 kB] Get:151 http://ftpmaster.internal/ubuntu/ wily/main libboost-test1.58-dev i386 1.58.0+dfsg-0ubuntu5 [230 kB] Get:152 http://ftpmaster.internal/ubuntu/ wily/main libboost-graph1.58-dev i386 1.58.0+dfsg-0ubuntu5 [104 kB] Get:153 http://ftpmaster.internal/ubuntu/ wily/universe libboost-graph-dev i386 1.58.0.0ubuntu1 [2894 B] Get:154 http://ftpmaster.internal/ubuntu/ wily-proposed/universe libcr0 i386 0.8.5-2.2 [19.9 kB] Get:155 http://ftpmaster.internal/ubuntu/ wily/main libibverbs1 i386 1.1.8-1.1ubuntu1 [26.5 kB] Get:156 http://ftpmaster.internal/ubuntu/ wily/universe libopenmpi1.6 i386 1.6.5-11 [1486 kB] Get:157 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi1.58.0 i386 1.58.0+dfsg-0ubuntu5 [49.3 kB] Get:158 http://ftpmaster.internal/ubuntu/ wily/universe libboost-graph-parallel1.58.0 i386 1.58.0+dfsg-0ubuntu5 [72.4 kB] Get:159 http://ftpmaster.internal/ubuntu/ wily/universe libboost-graph-parallel1.58-dev i386 1.58.0+dfsg-0ubuntu5 [77.5 kB] Get:160 http://ftpmaster.internal/ubuntu/ wily/universe libboost-graph-parallel-dev i386 1.58.0.0ubuntu1 [2934 B] Get:161 http://ftpmaster.internal/ubuntu/ wily/main libicu-dev i386 55.1-4 [8691 kB] Get:162 http://ftpmaster.internal/ubuntu/ wily/main libboost-regex1.58-dev i386 1.58.0+dfsg-0ubuntu5 [332 kB] Get:163 http://ftpmaster.internal/ubuntu/ wily/main libboost-iostreams1.58.0 i386 1.58.0+dfsg-0ubuntu5 [30.2 kB] Get:164 http://ftpmaster.internal/ubuntu/ wily/main libboost-iostreams1.58-dev i386 1.58.0+dfsg-0ubuntu5 [36.6 kB] Get:165 http://ftpmaster.internal/ubuntu/ wily/main libboost-iostreams-dev i386 1.58.0.0ubuntu1 [2790 B] Get:166 http://ftpmaster.internal/ubuntu/ wily/main libboost-locale1.58.0 i386 1.58.0+dfsg-0ubuntu5 [260 kB] Get:167 http://ftpmaster.internal/ubuntu/ wily/main libboost-locale1.58-dev i386 1.58.0+dfsg-0ubuntu5 [340 kB] Get:168 http://ftpmaster.internal/ubuntu/ wily/universe libboost-locale-dev i386 1.58.0.0ubuntu1 [3136 B] Get:169 http://ftpmaster.internal/ubuntu/ wily/main libboost-log1.58.0 i386 1.58.0+dfsg-0ubuntu5 [437 kB] Get:170 http://ftpmaster.internal/ubuntu/ wily/main libboost-thread1.58-dev i386 1.58.0+dfsg-0ubuntu5 [49.1 kB] Get:171 http://ftpmaster.internal/ubuntu/ wily/main libboost-log1.58-dev i386 1.58.0+dfsg-0ubuntu5 [541 kB] Get:172 http://ftpmaster.internal/ubuntu/ wily/main libboost-log-dev i386 1.58.0.0ubuntu1 [2988 B] Get:173 http://ftpmaster.internal/ubuntu/ wily/main libboost-math1.58.0 i386 1.58.0+dfsg-0ubuntu5 [241 kB] Get:174 http://ftpmaster.internal/ubuntu/ wily/main libboost-math1.58-dev i386 1.58.0+dfsg-0ubuntu5 [624 kB] Get:175 http://ftpmaster.internal/ubuntu/ wily/universe libboost-math-dev i386 1.58.0.0ubuntu1 [2998 B] Get:176 http://ftpmaster.internal/ubuntu/ wily/universe openmpi-common all 1.6.5-11 [101 kB] Get:177 http://ftpmaster.internal/ubuntu/ wily/main libibverbs-dev i386 1.1.8-1.1ubuntu1 [78.0 kB] Get:178 http://ftpmaster.internal/ubuntu/ wily/main libnuma-dev i386 2.0.10-1ubuntu3 [32.2 kB] Get:179 http://ftpmaster.internal/ubuntu/ wily/main libltdl-dev i386 2.4.2-1.11 [159 kB] Get:180 http://ftpmaster.internal/ubuntu/ wily/universe libhwloc-dev i386 1.11.0-1 [143 kB] Get:181 http://ftpmaster.internal/ubuntu/ wily/universe libopenmpi-dev i386 1.6.5-11 [378 kB] Get:182 http://ftpmaster.internal/ubuntu/ wily/universe mpi-default-dev i386 1.0.2+nmu2 [4000 B] Get:183 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi1.58-dev i386 1.58.0+dfsg-0ubuntu5 [146 kB] Get:184 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi-dev i386 1.58.0.0ubuntu1 [2880 B] Get:185 http://ftpmaster.internal/ubuntu/ wily/main libboost-python1.58.0 i386 1.58.0+dfsg-0ubuntu5 [124 kB] Get:186 http://ftpmaster.internal/ubuntu/ wily/universe openmpi-bin i386 1.6.5-11 [84.3 kB] Get:187 http://ftpmaster.internal/ubuntu/ wily/universe mpi-default-bin i386 1.0.2+nmu2 [3390 B] Get:188 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi-python1.58.0 i386 1.58.0+dfsg-0ubuntu5 [218 kB] Get:189 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi-python1.58-dev i386 1.58.0+dfsg-0ubuntu5 [26.2 kB] Get:190 http://ftpmaster.internal/ubuntu/ wily/universe libboost-mpi-python-dev i386 1.58.0.0ubuntu1 [2922 B] Get:191 http://ftpmaster.internal/ubuntu/ wily/main libboost-program-options1.58.0 i386 1.58.0+dfsg-0ubuntu5 [144 kB] Get:192 http://ftpmaster.internal/ubuntu/ wily/main libboost-program-options1.58-dev i386 1.58.0+dfsg-0ubuntu5 [174 kB] Get:193 http://ftpmaster.internal/ubuntu/ wily/main libboost-program-options-dev i386 1.58.0.0ubuntu1 [2820 B] Get:194 http://ftpmaster.internal/ubuntu/ wily/main libpython-dev i386 2.7.9-1 [7862 B] Get:195 http://ftpmaster.internal/ubuntu/ wily/main python2.7-dev i386 2.7.10-3 [270 kB] Get:196 http://ftpmaster.internal/ubuntu/ wily/main python-dev i386 2.7.9-1 [1226 B] Get:197 http://ftpmaster.internal/ubuntu/ wily/main libboost-python1.58-dev i386 1.58.0+dfsg-0ubuntu5 [151 kB] Get:198 http://ftpmaster.internal/ubuntu/ wily/main libboost-python-dev i386 1.58.0.0ubuntu1 [3178 B] Get:199 http://ftpmaster.internal/ubuntu/ wily/main libboost-random1.58.0 i386 1.58.0+dfsg-0ubuntu5 [12.1 kB] Get:200 http://ftpmaster.internal/ubuntu/ wily/main libboost-random1.58-dev i386 1.58.0+dfsg-0ubuntu5 [11.1 kB] Get:201 http://ftpmaster.internal/ubuntu/ wily/universe libboost-random-dev i386 1.58.0.0ubuntu1 [2804 B] Get:202 http://ftpmaster.internal/ubuntu/ wily/main libboost-regex-dev i386 1.58.0.0ubuntu1 [3054 B] Get:203 http://ftpmaster.internal/ubuntu/ wily/main libboost-serialization-dev i386 1.58.0.0ubuntu1 [3028 B] Get:204 http://ftpmaster.internal/ubuntu/ wily/main libboost-signals1.58.0 i386 1.58.0+dfsg-0ubuntu5 [33.5 kB] Get:205 http://ftpmaster.internal/ubuntu/ wily/main libboost-signals1.58-dev i386 1.58.0+dfsg-0ubuntu5 [35.3 kB] Get:206 http://ftpmaster.internal/ubuntu/ wily/universe libboost-signals-dev i386 1.58.0.0ubuntu1 [2862 B] Get:207 http://ftpmaster.internal/ubuntu/ wily/main libboost-system-dev i386 1.58.0.0ubuntu1 [2940 B] Get:208 http://ftpmaster.internal/ubuntu/ wily/main libboost-test-dev i386 1.58.0.0ubuntu1 [2836 B] Get:209 http://ftpmaster.internal/ubuntu/ wily/main libboost-thread-dev i386 1.58.0.0ubuntu1 [2826 B] Get:210 http://ftpmaster.internal/ubuntu/ wily/main libboost-timer1.58.0 i386 1.58.0+dfsg-0ubuntu5 [11.0 kB] Get:211 http://ftpmaster.internal/ubuntu/ wily/main libboost-timer1.58-dev i386 1.58.0+dfsg-0ubuntu5 [11.2 kB] Get:212 http://ftpmaster.internal/ubuntu/ wily/universe libboost-timer-dev i386 1.58.0.0ubuntu1 [2920 B] Get:213 http://ftpmaster.internal/ubuntu/ wily/main libboost-wave1.58.0 i386 1.58.0+dfsg-0ubuntu5 [192 kB] Get:214 http://ftpmaster.internal/ubuntu/ wily/main libboost-wave1.58-dev i386 1.58.0+dfsg-0ubuntu5 [248 kB] Get:215 http://ftpmaster.internal/ubuntu/ wily/universe libboost-wave-dev i386 1.58.0.0ubuntu1 [2832 B] Get:216 http://ftpmaster.internal/ubuntu/ wily/universe libboost-all-dev i386 1.58.0.0ubuntu1 [2216 B] Get:217 http://ftpmaster.internal/ubuntu/ wily/main libbz2-dev i386 1.0.6-8 [28.7 kB] Get:218 http://ftpmaster.internal/ubuntu/ wily/main libtcmalloc-minimal4 i386 2.4-0ubuntu4 [107 kB] Get:219 http://ftpmaster.internal/ubuntu/ wily/main libgoogle-perftools4 i386 2.4-0ubuntu4 [188 kB] Get:220 http://ftpmaster.internal/ubuntu/ wily/main libgoogle-perftools-dev i386 2.4-0ubuntu4 [412 kB] Get:221 http://ftpmaster.internal/ubuntu/ wily/main zlib1g-dev i386 1:1.2.8.dfsg-2ubuntu1 [168 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 203 MB in 18s (10.9 MB/s) Selecting previously unselected package libasprintf0v5:i386. 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Setting up texlive-binaries (2015.20150524.37493-5build1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libpaper-utils (1.1.24+nmu2ubuntu3) ... Setting up xdg-utils (1.1.0~rc1-2ubuntu11) ... Setting up preview-latex-style (11.88-1ubuntu1) ... update-language: texlive-base not installed and configured, doing nothing! Regenerating '/var/lib/texmf/fmtutil.cnf-DEBIAN'... done. Regenerating '/var/lib/texmf/fmtutil.cnf-TEXLIVEDIST'... done. update-fmtutil has updated the following file(s): /var/lib/texmf/fmtutil.cnf-DEBIAN /var/lib/texmf/fmtutil.cnf-TEXLIVEDIST If you want to activate the changes in the above file(s), you should run fmtutil-sys or fmtutil. Setting up gettext (0.19.4-1ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.2) ... Setting up po-debconf (1.0.18) ... Setting up debhelper (9.20150811ubuntu1) ... 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Processing triggers for tex-common (6.02) ... update-language: texlive-base not installed and configured, doing nothing! texlive-base is not ready, skipping fmtutil-sys --all call Setting up texlive-base (2015.20150625-1ubuntu1) ... /usr/bin/tl-paper: setting paper size for dvips to a4. /usr/bin/tl-paper: setting paper size for dvipdfmx to a4. /usr/bin/tl-paper: setting paper size for xdvi to a4. /usr/bin/tl-paper: setting paper size for pdftex to a4. Processing triggers for sgml-base (1.26+nmu4ubuntu1) ... Setting up docbook-xml (4.5-7.3) ... Processing triggers for tex-common (6.02) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Setting up texlive-fonts-recommended (2015.20150625-1ubuntu1) ... Setting up texlive-latex-base (2015.20150625-1ubuntu1) ... Processing triggers for tex-common (6.02) ... Running updmap-sys. This may take some time... done. 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Processing triggers for libc-bin (2.21-0ubuntu4) ... Processing triggers for systemd (224-2ubuntu2) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.19.0-26-generic amd64 (i686) Toolchain package versions: binutils_2.25.1-1ubuntu1 dpkg-dev_1.18.2ubuntu3 g++-5_5.2.1-15ubuntu5 gcc-5_5.2.1-15ubuntu5 libc6-dev_2.21-0ubuntu4 libstdc++-5-dev_5.2.1-15ubuntu5 libstdc++6_5.2.1-15ubuntu5 linux-libc-dev_4.1.0-3.3 Package versions: adduser_3.113+nmu3ubuntu4 advancecomp_1.19-1 apt_1.0.9.10ubuntu6 apt-transport-https_1.0.9.10ubuntu6 autoconf_2.69-8 autoconf-archive_20150224-2.1 automake_1:1.15-1ubuntu1 autopoint_0.19.4-1ubuntu3 autotools-dev_20140911.1 base-files_7.2ubuntu10 base-passwd_3.5.38 bash_4.3-13ubuntu1 binutils_2.25.1-1ubuntu1 bsdmainutils_9.0.6ubuntu1 bsdutils_1:2.26.2-6ubuntu3 build-essential_12.1ubuntu1 bzip2_1.0.6-8 ca-certificates_20150426ubuntu1 coreutils_8.23-3ubuntu1 cpp_4:5.2.1-3ubuntu1 cpp-5_5.2.1-15ubuntu5 dash_0.5.7-4ubuntu2 dblatex_0.3.5-2 debconf_1.5.57ubuntu1 debhelper_9.20150811ubuntu1 debianutils_4.5.1 dh-autoreconf_10 diffutils_1:3.3-1 dmsetup_2:1.02.99-1ubuntu1 docbook-xml_4.5-7.3 docbook-xsl_1.78.1+dfsg-1 dpkg_1.18.2ubuntu3 dpkg-dev_1.18.2ubuntu3 e2fslibs_1.42.12-1ubuntu2 e2fsprogs_1.42.12-1ubuntu2 fakeroot_1.20.2-1ubuntu1 file_1:5.22+15-2ubuntu1 findutils_4.4.2-9build1 flex_2.5.39-8 fontconfig-config_2.11.1-0ubuntu6 fonts-dejavu-core_2.35-1 g++_4:5.2.1-3ubuntu1 g++-5_5.2.1-15ubuntu5 gcc_4:5.2.1-3ubuntu1 gcc-5_5.2.1-15ubuntu5 gcc-5-base_5.2.1-15ubuntu5 gettext_0.19.4-1ubuntu3 gettext-base_0.19.4-1ubuntu3 gnupg_1.4.18-7ubuntu1 gpgv_1.4.18-7ubuntu1 grep_2.21-2 groff-base_1.22.3-1 gzip_1.6-4ubuntu1 hostname_3.15ubuntu2 icu-devtools_55.1-4 init_1.23ubuntu3 initscripts_2.88dsf-59.2ubuntu1 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.2 libacl1_2.2.52-2 libapparmor1_2.10-0ubuntu4 libapt-inst1.7_1.0.9.10ubuntu6 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libx11-6_2:1.6.3-1ubuntu1 libx11-data_2:1.6.3-1ubuntu1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb1_1.11-0ubuntu1 libxdmcp6_1:1.1.2-1 libxext6_2:1.3.3-1 libxi6_2:1.7.4-1 libxml2_2.9.2+dfsg1-3ubuntu1 libxmu6_2:1.1.2-1 libxpm4_1:3.5.11-1 libxslt1.1_1.1.28-2build2 libxt6_1:1.1.5-0ubuntu1 libzzip-0-13_0.13.62-3 linux-libc-dev_4.1.0-3.3 lockfile-progs_0.1.17 login_1:4.1.5.1-1.1ubuntu7 lsb-base_4.1+Debian11ubuntu8 m4_1.4.17-4 make_4.0-8.1 man-db_2.7.2-1 mawk_1.3.3-17ubuntu2 mime-support_3.58ubuntu1 mount_2.26.2-6ubuntu3 mpi-default-bin_1.0.2+nmu2 mpi-default-dev_1.0.2+nmu2 multiarch-support_2.21-0ubuntu4 ncurses-base_5.9+20150516-2ubuntu1 ncurses-bin_5.9+20150516-2ubuntu1 openmpi-bin_1.6.5-11 openmpi-common_1.6.5-11 openssl_1.0.2d-0ubuntu1 optipng_0.7.5-1 passwd_1:4.1.5.1-1.1ubuntu7 patch_2.7.5-1 perl_5.20.2-6 perl-base_5.20.2-6 perl-modules_5.20.2-6 pkg-create-dbgsym_0.69 pkgbinarymangler_121 po-debconf_1.0.18 policyrcd-script-zg2_0.1-2 poppler-data_0.4.7-3 preview-latex-style_11.88-1ubuntu1 procps_1:3.3.9-1ubuntu8 python_2.7.9-1 python-apt_1.0.0~beta3.1ubuntu1 python-apt-common_1.0.0~beta3.1ubuntu1 python-dev_2.7.9-1 python-minimal_2.7.9-1 python2.7_2.7.10-3 python2.7-dev_2.7.10-3 python2.7-minimal_2.7.10-3 readline-common_6.3-8ubuntu1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mira-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 sgml-base_1.26+nmu4ubuntu1 sgml-data_2.0.10 systemd_224-2ubuntu2 systemd-sysv_224-2ubuntu2 sysv-rc_2.88dsf-59.2ubuntu1 sysvinit-utils_2.88dsf-59.2ubuntu1 tar_1.27.1-2 tex-common_6.02 texlive_2015.20150625-1ubuntu1 texlive-base_2015.20150625-1ubuntu1 texlive-bibtex-extra_2015.20150810-1 texlive-binaries_2015.20150524.37493-5build1 texlive-extra-utils_2015.20150810-1 texlive-fonts-recommended_2015.20150625-1ubuntu1 texlive-latex-base_2015.20150625-1ubuntu1 texlive-latex-extra_2015.20150810-1 texlive-latex-recommended_2015.20150625-1ubuntu1 texlive-math-extra_2015.20150810-1 texlive-pictures_2015.20150625-1ubuntu1 tzdata_2015f-1 ubuntu-keyring_2012.05.19 ucf_3.0030 udev_224-2ubuntu2 util-linux_2.26.2-6ubuntu3 vim-common_2:7.4.712-2ubuntu2 x11-common_1:7.7+7ubuntu4 xdg-utils_1.1.0~rc1-2ubuntu11 xml-core_0.13+nmu2 xsltproc_1.1.28-2build2 xz-utils_5.1.1alpha+20120614-2ubuntu2 zlib1g_1:1.2.8.dfsg-2ubuntu1 zlib1g-dev_1:1.2.8.dfsg-2ubuntu1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: Signature made Fri Aug 28 11:00:37 2015 UTC using RSA key ID 778FA6F5 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./mira_4.9.5-1build1.dsc dpkg-source: info: extracting mira in mira-4.9.5 dpkg-source: info: unpacking mira_4.9.5.orig.tar.bz2 dpkg-source: info: unpacking mira_4.9.5-1build1.debian.tar.xz dpkg-source: info: applying fix_strange_link_issue.patch Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C LOGNAME=buildd MAIL=/var/mail/buildd OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games PWD=/«PKGBUILDDIR» SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /«CHROOT» su buildd -s /bin/sh -c cd '/«PKGBUILDDIR»' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ───────────────── dpkg-buildpackage: source package mira dpkg-buildpackage: source version 4.9.5-1build1 dpkg-buildpackage: source distribution wily dpkg-source --before-build mira-4.9.5 dpkg-buildpackage: host architecture i386 fakeroot debian/rules clean dh clean --with autoreconf dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory '/«PKGBUILDDIR»' ( cd doc ; make clean ) || true make[2]: Entering directory '/«PKGBUILDDIR»/doc' cd .. && make am--refresh make[3]: Entering directory '/«PKGBUILDDIR»' make[3]: *** No rule to make target 'am--refresh'. Stop. make[3]: Leaving directory '/«PKGBUILDDIR»' Makefile:261: recipe for target '../config.status' failed make[2]: *** [../config.status] Error 2 make[2]: Leaving directory '/«PKGBUILDDIR»/doc' dh_auto_clean find * -name Makefile -exec rm '{}' ';' find * -name '*.xxd.H' -exec rm '{}' ';' find * -name '*.par.H' -exec rm '{}' ';' find * -name 'compileinfo.*' -exec rm '{}' ';' make[1]: Leaving directory '/«PKGBUILDDIR»' dh_autoreconf_clean debian/rules override_dh_clean make[1]: Entering directory '/«PKGBUILDDIR»' dh_clean rm -f debian/mira-assembler.substvars rm -f debian/mira-assembler.*.debhelper rm -rf debian/mira-assembler/ rm -f debian/mira-examples.substvars rm -f debian/mira-examples.*.debhelper rm -rf debian/mira-examples/ rm -f debian/mira-doc.substvars rm -f debian/mira-doc.*.debhelper rm -rf debian/mira-doc/ rm -rf debian/.debhelper/ rm -f debian/*.debhelper.log rm -f -- src/io/so.obo.xxd rm -f debian/files find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) rm -f *-stamp rm -rf lib make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules build-arch dh build-arch --with autoreconf dh_testdir -a dh_autoreconf -a find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} \; > debian/autoreconf.before autoreconf -f -i libtoolize: putting auxiliary files in `.'. libtoolize: copying file `./ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `m4'. libtoolize: copying file `m4/libtool.m4' libtoolize: copying file `m4/ltoptions.m4' libtoolize: copying file `m4/ltsugar.m4' libtoolize: copying file `m4/ltversion.m4' libtoolize: copying file `m4/lt~obsolete.m4' configure.ac:102: installing './compile' doc/docbook/Makefile.am:22: warning: '%'-style pattern rules are a GNU make extension src/io/Makefile.am:12: warning: '%'-style pattern rules are a GNU make extension src/mira/Makefile.am:10: warning: '%'-style pattern rules are a GNU make extension find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} \; > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/«PKGBUILDDIR»' mkdir lib ln -s /usr/lib/libtcmalloc_minimal.so.4 lib/libtcmalloc_minimal.so #dh_auto_configure dh_auto_configure -- --with-boost-libdir=/usr/lib/i386-linux-gnu ./configure --build=i686-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/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --with-boost-libdir=/usr/lib/i386-linux-gnu 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 whether UID '2001' is supported by ustar format... yes checking whether GID '2501' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking for a sed that does not truncate output... /bin/sed checking whether to add --prefix as include path... yes +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include CXXFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ 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 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 +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include CXXFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for int64_t... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether long has 64bit... no checking whether enabling 64bit compilation support... no checking build system type... i686-pc-linux-gnu checking for compiler optimisation settings... -O3 -funroll-loops +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking host system type... i686-pc-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... (cached) /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether make sets $(MAKE)... (cached) yes checking whether ln -s works... yes checking for flex... yes checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for flex++... yes checking for xxd... yes checking for ANSI C header files... (cached) yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for C/C++ restrict keyword... __restrict checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking whether lstat correctly handles trailing slash... yes checking whether stat accepts an empty string... no checking for strftime... yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... 64 checking for _LARGEFILE_SOURCE value needed for large files... no checking for isblank... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking for boostlib >= 1.48.0... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_THREAD_LIB: -lboost_thread CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_THREAD_LIB: -lboost_thread CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu LIBS now: -lboost_thread +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_REGEX_LIB: -lboost_regex CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex +++++++++++++++++++++++++++++++++++++ checking whether the Boost::System library is available... yes checking for exit in -lboost_system... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_SYSTEM_LIB: -lboost_system CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Filesystem library is available... yes checking for exit in -lboost_filesystem... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_FILESYSTEM_LIB: -lboost_filesystem CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem +++++++++++++++++++++++++++++++++++++ checking whether the Boost::IOStreams library is available... yes checking for exit in -lboost_iostreams... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib/i386-linux-gnu ac_boost_path: ac_boost_lib_path: /usr/lib/i386-linux-gnu BOOST_IOSTREAMS_LIB: -lboost_iostreams CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -Wl,-rpath,/usr/lib/i386-linux-gnu CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams +++++++++++++++++++++++++++++++++++++ checking for clock_gettime in -lrt... yes +++++++++++++++++++++++++++++++++++++ Need to specifically use rt library LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt +++++++++++++++++++++++++++++++++++++ checking for Expat XML Parser headers in /usr/include... found checking for Expat XML Parser libraries... found checking for Expat XML Parser... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat +++++++++++++++++++++++++++++++++++++ checking if zlib is wanted... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include LDFLAGS now: -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib LIBS now: -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz +++++++++++++++++++++++++++++++++++++ checking for gzoffset in -lz... yes checking for BZ2_bzRead in -lbz2... yes checking for flex version compatible with MIRA... yes checking for profiling settings... no checking for purify... no checking whether mira should compile in public quiet mode... yes checking whether mira should compile with bound tracking... yes checking whether mira should compile with bug tracking... yes checking whether mira should compile with extended bug tracking... no checking whether mira should compile with function trace... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/stdinc/Makefile config.status: creating src/debuggersupport/Makefile config.status: creating src/memorc/Makefile config.status: creating src/errorhandling/Makefile config.status: creating src/util/Makefile config.status: creating src/io/Makefile config.status: creating src/mira/Makefile config.status: creating src/caf/Makefile config.status: creating src/support/Makefile config.status: creating src/scripts/Makefile config.status: creating src/modules/Makefile config.status: creating src/progs/Makefile config.status: creating doc/Makefile config.status: creating doc/docbook/Makefile config.status: creating distribution/Makefile config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode -------------------------------------------------------------------------------- Summary of MIRA configuration -------------------------------------------------------------------------------- Building version ................................. 4.9.5_2_linux-gnu_i686_32_dynamic We are building on ............................... Linux CPU supports 64 bit? ............................. no Compiler family .................................. gcc Compiler optimisation flags used ................. -O3 -funroll-loops Building completely static? ...................... no BOOST expected to compile and link? .............. yes Linking with TCmalloc library? ................... no Have complete zlib support? ...................... yes Can MIRA be built on this system? ................ yes Using CFLAGS : -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -L/«PKGBUILDDIR»/lib -I/usr/include -O3 -funroll-loops -I/usr/include -Werror=uninitialized -Werror=return-type Using CXXFLAGS : -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 Using LDFLAGS : -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib Using LIBS : -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 Looks good, we do not expect compilation problems. -------------------------------------------------------------------------------- Type 'make' to make the binaries and then 'make install' to install them. make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules override_dh_auto_build make[1]: Entering directory '/«PKGBUILDDIR»' dh_auto_build --parallel make -j4 make[2]: Entering directory '/«PKGBUILDDIR»' make all-recursive make[3]: Entering directory '/«PKGBUILDDIR»' Making all in src make[4]: Entering directory '/«PKGBUILDDIR»/src' make all-recursive make[5]: Entering directory '/«PKGBUILDDIR»/src' Making all in debuggersupport make[6]: Entering directory '/«PKGBUILDDIR»/src/debuggersupport' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o dbgsupport.o dbgsupport.C rm -f libmiradebuggersupport.a ar cru libmiradebuggersupport.a dbgsupport.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiradebuggersupport.a make[6]: Leaving directory '/«PKGBUILDDIR»/src/debuggersupport' Making all in io make[6]: Entering directory '/«PKGBUILDDIR»/src/io' Making .H out of .xxd so2xgap4map.xxd.H Reducing so.obo for smaller so.obo.xxd Making .H out of .xxd mira_ft_set.xxd.H Making .H out of .xxd gap4_ft_so_map.xxd.H Making .H out of .xxd oldso2so.xxd.H Making .H out of .xxd so.obo.xxd.H make all-am make[7]: Entering directory '/«PKGBUILDDIR»/src/io' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o annotationmappings.o annotationmappings.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o exp.o exp.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o generalio.o generalio.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o fasta.o fasta.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o fastq-mira.o fastq-mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o phd.o phd.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o scf.o scf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o ncbiinfoxml.o ncbiinfoxml.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o exp_flexer.o exp_flexer.cc rm -f libmirafio.a ar cru libmirafio.a annotationmappings.o exp.o generalio.o fasta.o fastq-mira.o phd.o scf.o ncbiinfoxml.o exp_flexer.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirafio.a make[7]: Leaving directory '/«PKGBUILDDIR»/src/io' make[6]: Leaving directory '/«PKGBUILDDIR»/src/io' Making all in stdinc make[6]: Entering directory '/«PKGBUILDDIR»/src/stdinc' make[6]: Nothing to be done for 'all'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/stdinc' Making all in errorhandling make[6]: Entering directory '/«PKGBUILDDIR»/src/errorhandling' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o errorhandling.o errorhandling.C rm -f libmiraerrorhandling.a ar cru libmiraerrorhandling.a errorhandling.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiraerrorhandling.a make[6]: Leaving directory '/«PKGBUILDDIR»/src/errorhandling' Making all in util make[6]: Entering directory '/«PKGBUILDDIR»/src/util' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o machineinfo.o machineinfo.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o fileanddisk.o fileanddisk.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o misc.o misc.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o dptools.o dptools.C fileanddisk.C:838:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } ^ fileanddisk.C:50:0: note: this is the location of the previous definition #define CEBUG(bla) ^ fileanddisk.C:943:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ fileanddisk.C:838:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o fmttext.o fmttext.C rm -f libmirafmttext.a ar cru libmirafmttext.a fmttext.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirafmttext.a rm -f libmiradptools.a ar cru libmiradptools.a dptools.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiradptools.a fileanddisk.C: In function 'int64 myGZRead(gzFile_s*&, void*, uint64)': fileanddisk.C:171:28: warning: ignoring return value of 'char* strerror_r(int, char*, size_t)', declared with attribute warn_unused_result [-Wunused-result] strerror_r(errno,buf,1024); ^ rm -f libmirautil.a ar cru libmirautil.a machineinfo.o fileanddisk.o misc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmirautil.a make[6]: Leaving directory '/«PKGBUILDDIR»/src/util' Making all in mira make[6]: Entering directory '/«PKGBUILDDIR»/src/mira' Making .H out of .xxd adaptorsforclip.454.xxd.H Making .H out of .xxd adaptorsforclip.solexa.xxd.H Making .H out of .xxd adaptorsregex.solexa.xxd.H Making .H out of .xxd adaptorsforclip.iontor.xxd.H Making .H out of .xxd adaptorsregex.iontor.xxd.H Making .H out of .xxd seqforfilter_phix174.solexa.xxd.H make all-am make[7]: Entering directory '/«PKGBUILDDIR»/src/mira' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o estassembly.o estassembly.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o hashstats_sdbg.o hashstats_sdbg.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o hashstats.o hashstats.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o skim.o skim.C hashstats.C:922:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ hashstats.C:78:0: note: this is the location of the previous definition #define CEBUG(bla) ^ hashstats.C:1031:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ hashstats.C:922:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly.o assembly.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig.o contig.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o read.o read.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_analysis.o contig_analysis.C read.C: In member function 'void Read::dumpAsReadname(std::ostream&)': read.C:1262:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ read.C: In member function 'void Read::dumpAsFASTA(std::ostream&, bool, bool, bool)': read.C:1293:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ read.C: In member function 'void Read::dumpAsFASTQ(std::ostream&, bool, bool, bool)': read.C:1377:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ read.C: In member function 'void Read::dumpAsFASTAQual(std::ostream&, bool, bool, bool)': read.C:1478:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ read.C: In member function 'void Read::dumpAsCAF(std::ostream&)': read.C:1550:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ read.C: In member function 'void Read::dumpAsMAF(std::ostream&)': read.C:1968:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=] sprintf(buffer, "%x", this) ; ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o ads.o ads.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o adsfacts.o adsfacts.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o align.o align.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_info.o assembly_info.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_buildcontigs.o assembly_buildcontigs.C assembly_buildcontigs.C:75:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } ^ assembly_buildcontigs.C:50:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_buildcontigs.C:1238:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_buildcontigs.C:75:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } ^ assembly_buildcontigs.C:1282:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } ^ assembly_buildcontigs.C:1238:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_buildcontigs.C:1436:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_buildcontigs.C:1282:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } ^ assembly_buildcontigs.C:1447:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush(); } ^ assembly_buildcontigs.C:1436:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_buildcontigs.C:1572:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_buildcontigs.C:1447:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_io.o assembly_io.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_misc.o assembly_misc.C assembly_misc.C:1882:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_misc.C:52:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_misc.C:1916:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_misc.C:1882:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_output.o assembly_output.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_pbcorrect.o assembly_pbcorrect.C assembly_pbcorrect.C:58:0: warning: "CEBUG" redefined #define CEBUG(bla) { if(docebug) {cout << bla; cout.flush();}} ^ assembly_pbcorrect.C:44:0: note: this is the location of the previous definition #define CEBUG(bla) ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_reduceskimhits.o assembly_reduceskimhits.C assembly_reduceskimhits.C:1117:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:882:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_reduceskimhits.C:1157:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_reduceskimhits.C:1117:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:2784:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:1157:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_reduceskimhits.C:2803:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_reduceskimhits.C:2784:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:2807:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:2803:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_reduceskimhits.C:2847:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_reduceskimhits.C:2807:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:2852:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ assembly_reduceskimhits.C:2847:0: note: this is the location of the previous definition #define CEBUG(bla) ^ assembly_reduceskimhits.C:2932:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ assembly_reduceskimhits.C:2852:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o assembly_swalign.o assembly_swalign.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_consensus.o contig_consensus.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_covanalysis.o contig_covanalysis.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_edit.o contig_edit.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_featureinfo.o contig_featureinfo.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_output.o contig_output.C contig_featureinfo.C:524:0: warning: "CEBUGF2" redefined #define CEBUGF2 ^ contig_featureinfo.C:485:0: note: this is the location of the previous definition #define CEBUGF2(bla) ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o contig_pairconsistency.o contig_pairconsistency.C contig_pairconsistency.C:312:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ contig_pairconsistency.C:33:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ contig_pairconsistency.C:314:0: warning: "CEBUG" redefined #define CEBUG(bla) {cout << bla; cout.flush();} ^ contig_pairconsistency.C:312:0: note: this is the location of the previous definition #define CEBUG(bla) ^ contig_pairconsistency.C:398:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ contig_pairconsistency.C:314:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush();} ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o dataprocessing.o dataprocessing.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o dynamic.o dynamic.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o gbf_parse.o gbf_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" 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-I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o gff_parse.o gff_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ 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-I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o pcrcontainer.o pcrcontainer.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ 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-DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o preventinitfiasco.o preventinitfiasco.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o readgrouplib.o readgrouplib.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o readlotstat.o readlotstat.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o readpool.o readpool.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o readpool_io.o readpool_io.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o sam_collect.o sam_collect.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o scaffolder.o scaffolder.C scaffolder.C:201:0: warning: "CEBUG" redefined #define CEBUG(bla) ^ scaffolder.C:82:0: note: this is the location of the previous definition #define CEBUG(bla) {cout << bla; cout.flush(); } ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o seqtohash.o seqtohash.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o simplebloomfilter.o simplebloomfilter.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o skim_lowbph.o skim_lowbph.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o warnings.o warnings.C rm -f libmiraestass.a ar cru libmiraestass.a estassembly.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiraestass.a rm -f libmira.a ar cru libmira.a hashstats_sdbg.o hashstats.o skim.o assembly.o contig.o read.o contig_analysis.o ads.o adsfacts.o align.o assembly_info.o assembly_buildcontigs.o assembly_io.o assembly_misc.o assembly_output.o assembly_pbcorrect.o assembly_reduceskimhits.o assembly_swalign.o contig_consensus.o contig_covanalysis.o contig_edit.o contig_featureinfo.o contig_output.o contig_pairconsistency.o dataprocessing.o dynamic.o gbf_parse.o gff_parse.o gff_save.o maf_parse.o manifest.o multitag.o parameters_flexer.o parameters.o pcrcontainer.o ppathfinder.o preventinitfiasco.o readgrouplib.o readlotstat.o readpool.o readpool_io.o sam_collect.o scaffolder.o seqtohash.o simplebloomfilter.o skim_lowbph.o warnings.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmira.a make[7]: Leaving directory '/«PKGBUILDDIR»/src/mira' make[6]: Leaving directory '/«PKGBUILDDIR»/src/mira' Making all in caf make[6]: Entering directory '/«PKGBUILDDIR»/src/caf' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o caf.o caf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o caf_flexer.o caf_flexer.cc rm -f libmiracaf.a ar cru libmiracaf.a caf.o caf_flexer.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiracaf.a make[6]: Leaving directory '/«PKGBUILDDIR»/src/caf' Making all in memorc make[6]: Entering directory '/«PKGBUILDDIR»/src/memorc' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o memorc.o memorc.C memorc.C: In static member function 'static void MemORC::statistics()': memorc.C:154:65: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'std::map::size_type {aka unsigned int}' [-Wformat=] printf("Num. memory blocks : %llu\n", MOC_memblocks.size()); ^ memorc.C:155:65: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'std::map::size_type {aka unsigned int}' [-Wformat=] printf("Num. active hot blocks : %llu\n", MOC_hotblocks.size()); ^ memorc.C:156:72: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'std::vector::size_type {aka unsigned int}' [-Wformat=] printf("Num. pending hot blocks: %llu\n", MOC_hotaidsrequested.size()); ^ memorc.C:157:60: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'size_t {aka unsigned int}' [-Wformat=] printf("Total mem reqested : %llu\n", MOC_reqmemalloc); ^ memorc.C:158:90: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'size_t {aka unsigned int}' [-Wformat=] printf("Total mem allocated : %llu (including pads and fences)\n", MOC_totalmemalloc); ^ memorc.C: In static member function 'static void* MemORC::newMemBlock(size_t)': memorc.C:224:116: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'size_t {aka unsigned int}' [-Wformat=] printf("Used malloc()\nTried to allocate %llu byte.\nSorry, memory allocation failed. Bailing out.\n", totaln); ^ memorc.C: In static member function 'static void MemORC::deleteMemBlock(void*)': memorc.C:310:112: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64 {aka long long unsigned int}' [-Wformat=] printf("Nearest memblock above (%d):\t",reinterpret_cast(mbI->first)-reinterpret_cast(usraddr)); ^ memorc.C:317:113: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64 {aka long long unsigned int}' [-Wformat=] printf("Nearest memblock below (-%d):\t",reinterpret_cast(usraddr)-reinterpret_cast(mbI->first)); ^ memorc.C: In static member function 'static bool MemORC::checkMemBlock(std::map::iterator)': memorc.C:499:44: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'size_t {aka unsigned int}' [-Wformat=] printf("Size: %llu\n", mbI->second.size); ^ memorc.C: In static member function 'static void MemORC::printMemBlockInfo(std::map::iterator)': memorc.C:557:50: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 3 has type 'size_t {aka unsigned int}' [-Wformat=] printf("%p\t%llu\t",mbI->first,mbI->second.size); ^ rm -f libmemorc.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o main.o main.C ar cru libmemorc.a memorc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmemorc.a /bin/bash ../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf/ -L/usr/lib/i386-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib -o main main.o -lmiraerrorhandling -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o main main.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf/ -L/usr/lib/i386-linux-gnu -L/usr/lib -lmiraerrorhandling -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt /usr/lib/i386-linux-gnu/libexpat.so -lm -lz -lbz2 -pthread make[6]: Leaving directory '/«PKGBUILDDIR»/src/memorc' Making all in modules make[6]: Entering directory '/«PKGBUILDDIR»/src/modules' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_sigconex.o mod_sigconex.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_scaffold.o mod_scaffold.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_bait.o mod_bait.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_dbgreplay.o mod_dbgreplay.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_diff.o mod_diff.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_mer.o mod_mer.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_mira.o mod_mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_convert.o mod_convert.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_memestim.o mod_memestim.C mod_mira.C: In function 'void miraMain_launchWrapped(int, char**)': mod_mira.C:424:21: warning: ignoring return value of 'int chdir(const char*)', declared with attribute warn_unused_result [-Wunused-result] chdir("../.."); ^ mod_mira.C:449:21: warning: ignoring return value of 'int chdir(const char*)', declared with attribute warn_unused_result [-Wunused-result] chdir("../.."); ^ g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mod_tagsnp.o mod_tagsnp.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o misc.o misc.C rm -f libmiramodules.a ar cru libmiramodules.a mod_sigconex.o mod_scaffold.o mod_bait.o mod_dbgreplay.o mod_diff.o mod_mer.o mod_mira.o mod_convert.o mod_memestim.o mod_tagsnp.o misc.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libmiramodules.a make[6]: Leaving directory '/«PKGBUILDDIR»/src/modules' Making all in progs make[6]: Entering directory '/«PKGBUILDDIR»/src/progs' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o quirks.o quirks.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o miratest.o miratest.C Making .H out of .xxd compileinfo.itxt g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -D_FORTIFY_SOURCE=2 -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o mira.o mira.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/i386-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib -o mira mira.o quirks.o -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o mira mira.o quirks.o -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/i386-linux-gnu -L/usr/lib -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt /usr/lib/i386-linux-gnu/libexpat.so -lm -lz -lbz2 -pthread /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/i386-linux-gnu -Wl,-Bsymbolic-functions -Wl,-z,relro -L/usr/lib -L/usr/lib/i386-linux-gnu -L/usr/lib -o miratest miratest.o -lmiramodules -lmiradebuggersupport -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz -lbz2 libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o miratest miratest.o -L../modules -L../debuggersupport -L../memorc -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../caf -L/usr/lib/i386-linux-gnu -L/usr/lib -lmiramodules -lmira -lmiraestass -lmiracaf -lmirautil -lmiradptools -lmirafio -lmiraerrorhandling -lmiradebuggersupport -lmirafmttext -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt /usr/lib/i386-linux-gnu/libexpat.so -lm -lz -lbz2 -pthread make[6]: Leaving directory '/«PKGBUILDDIR»/src/progs' Making all in support make[6]: Entering directory '/«PKGBUILDDIR»/src/support' make[6]: Nothing to be done for 'all'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/support' Making all in scripts make[6]: Entering directory '/«PKGBUILDDIR»/src/scripts' make[6]: Nothing to be done for 'all'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/scripts' make[6]: Entering directory '/«PKGBUILDDIR»/src' make[6]: Leaving directory '/«PKGBUILDDIR»/src' make[5]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Entering directory '/«PKGBUILDDIR»' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/«PKGBUILDDIR»' make[3]: Leaving directory '/«PKGBUILDDIR»' make[2]: Leaving directory '/«PKGBUILDDIR»' make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules override_dh_auto_test make[1]: Entering directory '/«PKGBUILDDIR»' make check make[2]: Entering directory '/«PKGBUILDDIR»' make check-recursive make[3]: Entering directory '/«PKGBUILDDIR»' Making check in src make[4]: Entering directory '/«PKGBUILDDIR»/src' make check-recursive make[5]: Entering directory '/«PKGBUILDDIR»/src' Making check in debuggersupport make[6]: Entering directory '/«PKGBUILDDIR»/src/debuggersupport' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/debuggersupport' Making check in io make[6]: Entering directory '/«PKGBUILDDIR»/src/io' make check-am make[7]: Entering directory '/«PKGBUILDDIR»/src/io' make[7]: Nothing to be done for 'check-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/io' make[6]: Leaving directory '/«PKGBUILDDIR»/src/io' Making check in stdinc make[6]: Entering directory '/«PKGBUILDDIR»/src/stdinc' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/stdinc' Making check in errorhandling make[6]: Entering directory '/«PKGBUILDDIR»/src/errorhandling' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/errorhandling' Making check in util make[6]: Entering directory '/«PKGBUILDDIR»/src/util' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/util' Making check in mira make[6]: Entering directory '/«PKGBUILDDIR»/src/mira' make check-am make[7]: Entering directory '/«PKGBUILDDIR»/src/mira' make[7]: Nothing to be done for 'check-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/mira' make[6]: Leaving directory '/«PKGBUILDDIR»/src/mira' Making check in caf make[6]: Entering directory '/«PKGBUILDDIR»/src/caf' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/caf' Making check in memorc make[6]: Entering directory '/«PKGBUILDDIR»/src/memorc' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/memorc' Making check in modules make[6]: Entering directory '/«PKGBUILDDIR»/src/modules' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/modules' Making check in progs make[6]: Entering directory '/«PKGBUILDDIR»/src/progs' Making .H out of .xxd compileinfo.itxt make[6]: Leaving directory '/«PKGBUILDDIR»/src/progs' Making check in support make[6]: Entering directory '/«PKGBUILDDIR»/src/support' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/support' Making check in scripts make[6]: Entering directory '/«PKGBUILDDIR»/src/scripts' make[6]: Nothing to be done for 'check'. make[6]: Leaving directory '/«PKGBUILDDIR»/src/scripts' make[6]: Entering directory '/«PKGBUILDDIR»/src' make[6]: Leaving directory '/«PKGBUILDDIR»/src' make[5]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Entering directory '/«PKGBUILDDIR»' make[4]: Nothing to be done for 'check-am'. make[4]: Leaving directory '/«PKGBUILDDIR»' make[3]: Leaving directory '/«PKGBUILDDIR»' make[2]: Leaving directory '/«PKGBUILDDIR»' make[1]: Leaving directory '/«PKGBUILDDIR»' fakeroot debian/rules binary-arch dh binary-arch --with autoreconf dh_testroot -a dh_prep -a rm -f debian/mira-assembler.substvars rm -f debian/mira-assembler.*.debhelper rm -rf debian/mira-assembler/ dh_installdirs -a install -d debian/mira-assembler install -d debian/mira-assembler/usr/bin debian/rules override_dh_auto_install make[1]: Entering directory '/«PKGBUILDDIR»' make install DESTDIR=/«PKGBUILDDIR»/debian/mira-assembler make[2]: Entering directory '/«PKGBUILDDIR»' make install-recursive make[3]: Entering directory '/«PKGBUILDDIR»' Making install in src make[4]: Entering directory '/«PKGBUILDDIR»/src' make install-recursive make[5]: Entering directory '/«PKGBUILDDIR»/src' Making install in debuggersupport make[6]: Entering directory '/«PKGBUILDDIR»/src/debuggersupport' make[7]: Entering directory '/«PKGBUILDDIR»/src/debuggersupport' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/debuggersupport' make[6]: Leaving directory '/«PKGBUILDDIR»/src/debuggersupport' Making install in io make[6]: Entering directory '/«PKGBUILDDIR»/src/io' make install-am make[7]: Entering directory '/«PKGBUILDDIR»/src/io' make[8]: Entering directory '/«PKGBUILDDIR»/src/io' make[8]: Nothing to be done for 'install-exec-am'. make[8]: Nothing to be done for 'install-data-am'. make[8]: Leaving directory '/«PKGBUILDDIR»/src/io' make[7]: Leaving directory '/«PKGBUILDDIR»/src/io' make[6]: Leaving directory '/«PKGBUILDDIR»/src/io' Making install in stdinc make[6]: Entering directory '/«PKGBUILDDIR»/src/stdinc' make[7]: Entering directory '/«PKGBUILDDIR»/src/stdinc' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/stdinc' make[6]: Leaving directory '/«PKGBUILDDIR»/src/stdinc' Making install in errorhandling make[6]: Entering directory '/«PKGBUILDDIR»/src/errorhandling' make[7]: Entering directory '/«PKGBUILDDIR»/src/errorhandling' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/errorhandling' make[6]: Leaving directory '/«PKGBUILDDIR»/src/errorhandling' Making install in util make[6]: Entering directory '/«PKGBUILDDIR»/src/util' make[7]: Entering directory '/«PKGBUILDDIR»/src/util' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/util' make[6]: Leaving directory '/«PKGBUILDDIR»/src/util' Making install in mira make[6]: Entering directory '/«PKGBUILDDIR»/src/mira' make install-am make[7]: Entering directory '/«PKGBUILDDIR»/src/mira' make[8]: Entering directory '/«PKGBUILDDIR»/src/mira' make[8]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira' /usr/bin/install -c -m 644 demoparam.prm '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira' make[8]: Leaving directory '/«PKGBUILDDIR»/src/mira' make[7]: Leaving directory '/«PKGBUILDDIR»/src/mira' make[6]: Leaving directory '/«PKGBUILDDIR»/src/mira' Making install in caf make[6]: Entering directory '/«PKGBUILDDIR»/src/caf' make[7]: Entering directory '/«PKGBUILDDIR»/src/caf' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/caf' make[6]: Leaving directory '/«PKGBUILDDIR»/src/caf' Making install in memorc make[6]: Entering directory '/«PKGBUILDDIR»/src/memorc' make[7]: Entering directory '/«PKGBUILDDIR»/src/memorc' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/memorc' make[6]: Leaving directory '/«PKGBUILDDIR»/src/memorc' Making install in modules make[6]: Entering directory '/«PKGBUILDDIR»/src/modules' make[7]: Entering directory '/«PKGBUILDDIR»/src/modules' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/modules' make[6]: Leaving directory '/«PKGBUILDDIR»/src/modules' Making install in progs make[6]: Entering directory '/«PKGBUILDDIR»/src/progs' Making .H out of .xxd compileinfo.itxt make[7]: Entering directory '/«PKGBUILDDIR»/src/progs' Making .H out of .xxd compileinfo.itxt /bin/mkdir -p '/«PKGBUILDDIR»/debian/mira-assembler/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c mira '/«PKGBUILDDIR»/debian/mira-assembler/usr/bin' libtool: install: /usr/bin/install -c mira /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/mira make install-exec-hook make[8]: Entering directory '/«PKGBUILDDIR»/src/progs' cd /«PKGBUILDDIR»/debian/mira-assembler/usr/bin && \ rm -f miramem && \ ln -s mira miramem && \ rm -f mirabait && \ ln -s mira mirabait &&\ rm -f miraconvert && \ ln -s mira miraconvert && \ rm -f miramer && \ ln -s mira miramer make[8]: Leaving directory '/«PKGBUILDDIR»/src/progs' make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/progs' make[6]: Leaving directory '/«PKGBUILDDIR»/src/progs' Making install in support make[6]: Entering directory '/«PKGBUILDDIR»/src/support' make[7]: Entering directory '/«PKGBUILDDIR»/src/support' make[7]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira/support_3rdparty_tools' /usr/bin/install -c -m 644 consedrc.13.0 consedtaglib.txt GTAGDB README '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira/support_3rdparty_tools' make[7]: Leaving directory '/«PKGBUILDDIR»/src/support' make[6]: Leaving directory '/«PKGBUILDDIR»/src/support' Making install in scripts make[6]: Entering directory '/«PKGBUILDDIR»/src/scripts' make[7]: Entering directory '/«PKGBUILDDIR»/src/scripts' make install-exec-hook make[8]: Entering directory '/«PKGBUILDDIR»/src/scripts' rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fixACE4consed.tcl && \ cp fixACE4consed.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fasta2frag.tcl && \ cp fasta2frag.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin make[8]: Leaving directory '/«PKGBUILDDIR»/src/scripts' make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src/scripts' make[6]: Leaving directory '/«PKGBUILDDIR»/src/scripts' make[6]: Entering directory '/«PKGBUILDDIR»/src' make[7]: Entering directory '/«PKGBUILDDIR»/src' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/«PKGBUILDDIR»/src' make[6]: Leaving directory '/«PKGBUILDDIR»/src' make[5]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Leaving directory '/«PKGBUILDDIR»/src' make[4]: Entering directory '/«PKGBUILDDIR»' make[5]: Entering directory '/«PKGBUILDDIR»' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/«PKGBUILDDIR»' make[4]: Leaving directory '/«PKGBUILDDIR»' make[3]: Leaving directory '/«PKGBUILDDIR»' make[2]: Leaving directory '/«PKGBUILDDIR»' #There is no installation target for the docs mkdir -p /«PKGBUILDDIR»/debian/tmp/usr/share/doc/mira-assembler cp -r -t /«PKGBUILDDIR»/debian/tmp/usr/share/doc/mira-assembler doc/docbook/bookfigures doc/docbook/images \ doc/docbook/doccss doc/docbook/DefinitiveGuideToMIRA.html || true cp: cannot stat 'doc/docbook/DefinitiveGuideToMIRA.html': No such file or directory make[1]: Leaving directory '/«PKGBUILDDIR»' debian/rules override_dh_install make[1]: Entering directory '/«PKGBUILDDIR»' dh_install if [ -d debian/mira-assembler ] ; then \ for f in $(ls debian/mira-assembler/usr/bin/*.tcl) ; do mv "$f" "${f%.tcl}"; done \ fi # In version 3.9.17 executing miraSearchESTSNPs just leads to "De-activated atm, sorry." # If this is the case, it should not be installed for deactivated in miraSearchESTSNPs miraclip ; do \ if [ -e debian/mira-assembler/usr/bin/${deactivated} ] ; then \ if [ "`debian/mira-assembler/usr/bin/${deactivated} 2>&1 | tee`" = "De-activated atm, sorry." ] ; then rm -f debian/mira-assembler/usr/bin/${deactivated} ; fi \ else \ echo "debian/mira-assembler/usr/bin/${deactivated} does not exist" ; \ fi ; \ done debian/mira-assembler/usr/bin/miraSearchESTSNPs does not exist debian/mira-assembler/usr/bin/miraclip does not exist make[1]: Leaving directory '/«PKGBUILDDIR»' dh_installdocs -a install -d debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a NEWS debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a README debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a THANKS debian/mira-assembler/usr/share/doc/mira-assembler cp --reflink=auto -a HELP_WANTED debian/mira-assembler/usr/share/doc/mira-assembler chown -R 0:0 debian/mira-assembler/usr/share/doc chmod -R go=rX debian/mira-assembler/usr/share/doc chmod -R u\+rw debian/mira-assembler/usr/share/doc install -p -m0644 debian/copyright debian/mira-assembler/usr/share/doc/mira-assembler/copyright dh_installchangelogs -a install -p -m0644 debian/changelog debian/mira-assembler/usr/share/doc/mira-assembler/changelog.Debian debian/rules override_dh_installexamples make[1]: Entering directory '/«PKGBUILDDIR»' dh_installexamples # avoid duplicated files if cmp /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta.qual /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta.qual >/dev/null ; then \ echo "removing copy of usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta.qual and create symling" ; \ rm -f /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta.qual ; \ ln -s cjejuni_demo_in.fasta.qual.gz /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta.qual.gz ; \ fi cmp: /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta.qual: No such file or directory if cmp /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta >/dev/null ; then \ echo "removing copy of usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta and create symling" ; \ rm -f /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta ; \ ln -s cjejuni_demo_in.fasta.gz /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.sanger.fasta.gz ; \ fi cmp: /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_in.fasta: No such file or directory if cmp /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_NCTC11168_first40kb.gbf /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_backbone_in.gbf >/dev/null ; then \ echo "removing copy of usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_NCTC11168_first40kb.gbf and create symling" ; \ rm -f /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_backbone_in.gbf ; \ ln -s cjejuni_NCTC11168_first40kb.gbf.gz /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_backbone_in.gbf.gz ; \ fi cmp: /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_NCTC11168_first40kb.gbf: No such file or directory if cmp /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.xml /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.sanger.xml >/dev/null ; then \ echo "removing copy of usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.xml and create symling" ; \ rm -f /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.sanger.xml ; \ ln -s cjejuni_demo_traceinfo_in.xml.gz /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.sanger.xml.gz ; \ fi cmp: /«PKGBUILDDIR»/debian/mira-examples/usr/share/doc/mira-examples/examples/minidemo/data/bbdataset1//cjejuni_demo_traceinfo_in.xml: No such file or directory make[1]: Leaving directory '/«PKGBUILDDIR»' dh_installman -a install -d debian/mira-assembler/usr/share/man/man1/ install -p -m0644 debian/convert_project.1 debian/mira-assembler/usr/share/man/man1/convert_project.1 install -p -m0644 debian/fasta2frag.1 debian/mira-assembler/usr/share/man/man1/fasta2frag.1 install -p -m0644 debian/fastaselect.1 debian/mira-assembler/usr/share/man/man1/fastaselect.1 install -p -m0644 debian/fastatool.1 debian/mira-assembler/usr/share/man/man1/fastatool.1 install -p -m0644 debian/fastqselect.1 debian/mira-assembler/usr/share/man/man1/fastqselect.1 install -p -m0644 debian/fixACE4consed.1 debian/mira-assembler/usr/share/man/man1/fixACE4consed.1 install -p -m0644 debian/mira.1 debian/mira-assembler/usr/share/man/man1/mira.1 install -p -m0644 debian/mirabait.1 debian/mira-assembler/usr/share/man/man1/mirabait.1 install -p -m0644 debian/miradiff.1 debian/mira-assembler/usr/share/man/man1/miradiff.1 install -p -m0644 debian/miramem.1 debian/mira-assembler/usr/share/man/man1/miramem.1 install -p -m0644 debian/miramer.1 debian/mira-assembler/usr/share/man/man1/miramer.1 install -p -m0644 debian/miraSearchESTSNPs.1 debian/mira-assembler/usr/share/man/man1/miraSearchESTSNPs.1 install -p -m0644 debian/scftool.1 debian/mira-assembler/usr/share/man/man1/scftool.1 man --recode UTF-8 ./miraSearchESTSNPs\.1 > miraSearchESTSNPs\.1\.new chmod 644 miraSearchESTSNPs.1.new mv -f miraSearchESTSNPs.1.new miraSearchESTSNPs.1 man --recode UTF-8 ./fasta2frag\.1 > fasta2frag\.1\.new chmod 644 fasta2frag.1.new mv -f fasta2frag.1.new fasta2frag.1 man --recode UTF-8 ./fastatool\.1 > fastatool\.1\.new chmod 644 fastatool.1.new mv -f fastatool.1.new fastatool.1 man --recode UTF-8 ./fixACE4consed\.1 > fixACE4consed\.1\.new chmod 644 fixACE4consed.1.new mv -f fixACE4consed.1.new fixACE4consed.1 man --recode UTF-8 ./miramem\.1 > miramem\.1\.new chmod 644 miramem.1.new mv -f miramem.1.new miramem.1 man --recode UTF-8 ./scftool\.1 > scftool\.1\.new chmod 644 scftool.1.new mv -f scftool.1.new scftool.1 man --recode UTF-8 ./fastaselect\.1 > fastaselect\.1\.new chmod 644 fastaselect.1.new mv -f fastaselect.1.new fastaselect.1 man --recode UTF-8 ./miramer\.1 > miramer\.1\.new chmod 644 miramer.1.new mv -f miramer.1.new miramer.1 man --recode UTF-8 ./convert_project\.1 > convert_project\.1\.new chmod 644 convert_project.1.new mv -f convert_project.1.new convert_project.1 man --recode UTF-8 ./mirabait\.1 > mirabait\.1\.new chmod 644 mirabait.1.new mv -f mirabait.1.new mirabait.1 man --recode UTF-8 ./fastqselect\.1 > fastqselect\.1\.new chmod 644 fastqselect.1.new mv -f fastqselect.1.new fastqselect.1 man --recode UTF-8 ./miradiff\.1 > miradiff\.1\.new chmod 644 miradiff.1.new mv -f miradiff.1.new miradiff.1 man --recode UTF-8 ./mira\.1 > mira\.1\.new chmod 644 mira.1.new mv -f mira.1.new mira.1 dh_lintian -a install -d debian/mira-assembler/usr/share/lintian/overrides install -p -m0644 debian/mira-assembler.lintian-overrides debian/mira-assembler/usr/share/lintian/overrides/mira-assembler dh_perl -a dh_link -a rm -f debian/mira-assembler/usr/bin/miramer ln -sf mira debian/mira-assembler/usr/bin/miramer rm -f debian/mira-assembler/usr/bin/mirabait ln -sf mira debian/mira-assembler/usr/bin/mirabait rm -f debian/mira-assembler/usr/bin/miramem ln -sf mira debian/mira-assembler/usr/bin/miramem rm -f debian/mira-assembler/usr/bin/miraconvert ln -sf mira debian/mira-assembler/usr/bin/miraconvert dh_compress -a cd debian/mira-assembler chmod a-x usr/share/man/man1/miraSearchESTSNPs.1 usr/share/man/man1/fasta2frag.1 usr/share/man/man1/fastatool.1 usr/share/man/man1/fixACE4consed.1 usr/share/man/man1/miramem.1 usr/share/man/man1/scftool.1 usr/share/man/man1/fastaselect.1 usr/share/man/man1/miramer.1 usr/share/man/man1/convert_project.1 usr/share/man/man1/mirabait.1 usr/share/man/man1/fastqselect.1 usr/share/man/man1/miradiff.1 usr/share/man/man1/mira.1 usr/share/doc/mira-assembler/NEWS usr/share/doc/mira-assembler/changelog.Debian gzip -9nf usr/share/man/man1/miraSearchESTSNPs.1 usr/share/man/man1/fasta2frag.1 usr/share/man/man1/fastatool.1 usr/share/man/man1/fixACE4consed.1 usr/share/man/man1/miramem.1 usr/share/man/man1/scftool.1 usr/share/man/man1/fastaselect.1 usr/share/man/man1/miramer.1 usr/share/man/man1/convert_project.1 usr/share/man/man1/mirabait.1 usr/share/man/man1/fastqselect.1 usr/share/man/man1/miradiff.1 usr/share/man/man1/mira.1 usr/share/doc/mira-assembler/NEWS usr/share/doc/mira-assembler/changelog.Debian cd '/«PKGBUILDDIR»' dh_fixperms -a find debian/mira-assembler -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/mira-assembler ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mira-assembler/usr/share/doc -type f ! -regex 'debian/mira-assembler/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755 find debian/mira-assembler/usr/share/man debian/mira-assembler/usr/man/ debian/mira-assembler/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644 find debian/mira-assembler/usr/lib/i386-linux-gnu/perl5/5.20 debian/mira-assembler/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X find debian/mira-assembler/usr/bin -type f -print0 2>/dev/null | xargs -0r chmod a+x find debian/mira-assembler/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w find debian/mira-assembler/usr/share/lintian/overrides -type f -print0 2>/dev/null | xargs -0r chmod 0644 dh_strip -a dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: mira-assembler dh_strip debug symbol extraction: packages to act on: mira-assembler dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: -is is deprecated; it is without effect dpkg-gencontrol: warning: -ip is deprecated; it is without effect dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/mira dh_makeshlibs -a rm -f debian/mira-assembler/DEBIAN/shlibs dh_shlibdeps -a install -d debian/mira-assembler/DEBIAN dpkg-shlibdeps -Tdebian/mira-assembler.substvars debian/mira-assembler/usr/bin/mira dh_installdeb -a dh_gencontrol -a echo misc:Depends= >> debian/mira-assembler.substvars echo misc:Pre-Depends= >> debian/mira-assembler.substvars dpkg-gencontrol -pmira-assembler -ldebian/changelog -Tdebian/mira-assembler.substvars -Pdebian/mira-assembler dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe chmod 0644 debian/mira-assembler/DEBIAN/control chown 0:0 debian/mira-assembler/DEBIAN/control dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform i386: mira-assembler dh_gencontrol debug symbol wrapper: packages to act on: mira-assembler dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: processing package mira-assembler (pkgdir debian/mira-assembler, ddeb package dir debian/mira-assembler-dbgsym) dh_gencontrol debug symbol wrapper: building mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb dpkg-deb: building package 'mira-assembler-dbgsym' in '../mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a (cd debian/mira-assembler >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null chmod 0644 debian/mira-assembler/DEBIAN/md5sums chown 0:0 debian/mira-assembler/DEBIAN/md5sums debian/rules override_dh_builddeb make[1]: Entering directory '/«PKGBUILDDIR»' dh_builddeb -- -Z xz dpkg-deb -Z xz --build debian/mira-assembler .. INFO: pkgstriptranslations version 121 pkgstriptranslations: processing mira-assembler (in debian/mira-assembler); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/mira-assembler/DEBIAN/control, package mira-assembler, directory debian/mira-assembler pkgstripfiles: Truncating usr/share/doc/mira-assembler/changelog.Debian.gz to topmost ten records pkgstripfiles: PNG optimization for package mira-assembler took 0 s dpkg-deb: building package 'mira-assembler' in '../mira-assembler_4.9.5-1build1_i386.deb'. make[1]: Leaving directory '/«PKGBUILDDIR»' dpkg-genchanges -B -mLaunchpad Build Daemon >../mira_4.9.5-1build1_i386.changes dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build mira-4.9.5 dpkg-buildpackage: binary-only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20150828-1124 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build Chroot │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ mira_4.9.5-1build1_i386.changes: ──────────────────────────────── Format: 1.8 Date: Fri, 28 Aug 2015 10:54:39 +0000 Source: mira Binary: mira-assembler mira-examples mira-doc Architecture: i386 Version: 4.9.5-1build1 Distribution: wily-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: mira-assembler - Whole Genome Shotgun and EST Sequence Assembler mira-doc - documentation for the mira assembler mira-examples - files to experiment with the mira assembler Changes: mira (4.9.5-1build1) wily; urgency=medium . * No-change rebuild using GCC 5. Checksums-Sha1: 43fbebe875198f0e25eb2733e36de651a8dc50aa 14333110 mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb 52f8528f1d88dfa4de0735b50c5135f43bda16d7 1750692 mira-assembler_4.9.5-1build1_i386.deb Checksums-Sha256: f04c1ae44b541edf4c02086267f326584e98a630ce6eb8c33bc3bb9a1c357c13 14333110 mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb cf18924ce434f614add2eec5e946c0169df3b91d094a74286dbb7cb6938daa36 1750692 mira-assembler_4.9.5-1build1_i386.deb Files: 78ec5ff43877ac4a5b4ae14348153adc 14333110 science extra mira-assembler-dbgsym_4.9.5-1build1_i386.ddeb 4d5f9021e8fc0766a9e023cc8d173689 1750692 science optional mira-assembler_4.9.5-1build1_i386.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ mira-assembler_4.9.5-1build1_i386.deb ───────────────────────────────────── new debian package, version 2.0. size 1750692 bytes: control archive=2356 bytes. 2617 bytes, 48 lines control 1965 bytes, 28 lines md5sums Package: mira-assembler Source: mira Version: 4.9.5-1build1 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 5641 Depends: libboost-filesystem1.58.0, libboost-regex1.58.0, libboost-system1.58.0, libboost-thread1.58.0, libc6 (>= 2.4), libexpat1 (>= 2.0.1), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.6) Suggests: mira-examples, mira-doc Section: science Priority: optional Homepage: http://chevreux.org/projects_mira.html Description: Whole Genome Shotgun and EST Sequence Assembler The mira genome fragment assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats. For expressed sequence tags (ESTs) transcripts, miraEST is specialised on reconstructing pristine mRNA transcripts while detecting and classifying single nucleotide polymorphisms (SNP) occuring in different variations thereof. . The assembler is routinely used for such various tasks as mutation detection in different cell types, similarity analysis of transcripts between organisms, and pristine assembly of sequences from various sources for oligo design in clinical microarray experiments. . The package provides the following executables: Binaries provided: * mira: for assembly of genome sequences * miramem: estimating memory needed to assemble projects. Realised through link to mira. * convert_project: for converting project file types into other types * caf2fasta, caf2gbf, caf2text, caf2html, gbf2caf and gbf2fasta are some frequently used file converters (realised through links to convert_project) * scftool: set of tools useful when working with SCF trace files * fastatool: set of tools useful when working with FASTA trace files . Scripts provided: * fasta2frag: fragmenting sequences into smaller, overlapping subsequences. Useful for simulating shotgun sequences. Can create subsequences in both directions (/default) and also paired-end sequences. * fastaselect: given a FASTA file (and possibly a FASTA quality file) and a file with names of reads, select the sequences from the input FASTA (and quality file) and writes them to an output FASTA * fastqselect: like fastaselect, only for FASTQ * fixACE4consed: Consed has a bug which incapacitates it from reading consensus tags in ACE files written by the MIRA assembler (and possibly other programs). This script massages an ACE file so that consed can read the consensus tags. drwxr-xr-x root/root 0 2015-08-28 11:22 ./ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/bin/ -rwxr-xr-x root/root 15396 2015-08-28 11:22 ./usr/bin/fasta2frag -rwxr-xr-x root/root 1617 2015-08-28 11:22 ./usr/bin/fixACE4consed -rwxr-xr-x root/root 5683236 2015-08-28 11:22 ./usr/bin/mira lrwxrwxrwx root/root 0 2015-08-28 11:22 ./usr/bin/mirabait -> mira lrwxrwxrwx root/root 0 2015-08-28 11:22 ./usr/bin/miraconvert -> mira lrwxrwxrwx root/root 0 2015-08-28 11:22 ./usr/bin/miramem -> mira lrwxrwxrwx root/root 0 2015-08-28 11:22 ./usr/bin/miramer -> mira drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/doc/ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/doc/mira-assembler/ -rw-r--r-- root/root 1384 2015-05-14 14:38 ./usr/share/doc/mira-assembler/HELP_WANTED -rw-r--r-- root/root 263 2015-05-14 14:38 ./usr/share/doc/mira-assembler/NEWS.gz -rw-r--r-- root/root 2692 2015-05-14 14:38 ./usr/share/doc/mira-assembler/README -rw-r--r-- root/root 3855 2015-05-14 14:38 ./usr/share/doc/mira-assembler/THANKS -rw-r--r-- root/root 1966 2015-08-28 11:24 ./usr/share/doc/mira-assembler/changelog.Debian.gz -rw-r--r-- root/root 2400 2013-09-12 08:58 ./usr/share/doc/mira-assembler/copyright drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/lintian/ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 147 2013-09-26 15:26 ./usr/share/lintian/overrides/mira-assembler drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/man/ drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/man/man1/ -rw-r--r-- root/root 3198 2015-08-28 11:22 ./usr/share/man/man1/convert_project.1.gz -rw-r--r-- root/root 1257 2015-08-28 11:22 ./usr/share/man/man1/fasta2frag.1.gz -rw-r--r-- root/root 847 2015-08-28 11:22 ./usr/share/man/man1/fastaselect.1.gz -rw-r--r-- root/root 916 2015-08-28 11:22 ./usr/share/man/man1/fastatool.1.gz -rw-r--r-- root/root 847 2015-08-28 11:22 ./usr/share/man/man1/fastqselect.1.gz -rw-r--r-- root/root 681 2015-08-28 11:22 ./usr/share/man/man1/fixACE4consed.1.gz -rw-r--r-- root/root 1026 2015-08-28 11:22 ./usr/share/man/man1/mira.1.gz -rw-r--r-- root/root 1084 2015-08-28 11:22 ./usr/share/man/man1/miraSearchESTSNPs.1.gz -rw-r--r-- root/root 876 2015-08-28 11:22 ./usr/share/man/man1/mirabait.1.gz -rw-r--r-- root/root 673 2015-08-28 11:22 ./usr/share/man/man1/miradiff.1.gz -rw-r--r-- root/root 770 2015-08-28 11:22 ./usr/share/man/man1/miramem.1.gz -rw-r--r-- root/root 671 2015-08-28 11:22 ./usr/share/man/man1/miramer.1.gz -rw-r--r-- root/root 880 2015-08-28 11:22 ./usr/share/man/man1/scftool.1.gz drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/mira/ -rw-r--r-- root/root 13225 2015-08-28 11:22 ./usr/share/mira/demoparam.prm drwxr-xr-x root/root 0 2015-08-28 11:22 ./usr/share/mira/support_3rdparty_tools/ -rw-r--r-- root/root 2571 2015-08-28 11:22 ./usr/share/mira/support_3rdparty_tools/GTAGDB -rw-r--r-- root/root 735 2015-08-28 11:22 ./usr/share/mira/support_3rdparty_tools/README -rw-r--r-- root/root 58 2015-08-28 11:22 ./usr/share/mira/support_3rdparty_tools/consedrc.13.0 -rw-r--r-- root/root 762 2015-08-28 11:22 ./usr/share/mira/support_3rdparty_tools/consedtaglib.txt ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Not removing build depends: as requested Keeping session: ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: i386 Build-Space: 468736 Build-Time: 548 Distribution: wily-proposed Host Architecture: i386 Install-Time: 106 Job: mira_4.9.5-1build1.dsc Machine Architecture: amd64 Package: mira Package-Time: 658 Source-Version: 4.9.5-1build1 Space: 468736 Status: successful Version: 4.9.5-1build1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20150828-1124 Build needed 00:10:58, 468736k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-7845050'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-7845050/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-7845050'] Unmounting chroot for build PACKAGEBUILD-7845050... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-7845050'] Removing build PACKAGEBUILD-7845050